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Jiang O, Chen Y, Li C, Yang X, Gustave W, Tang X. Loss of microbial diversity increases methane emissions and arsenic release in paddy soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 948:174656. [PMID: 38992367 DOI: 10.1016/j.scitotenv.2024.174656] [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: 04/09/2024] [Revised: 06/14/2024] [Accepted: 07/07/2024] [Indexed: 07/13/2024]
Abstract
Microorganisms are vital to the emission of greenhouse gases and transforming pollutants in paddy soils. However, the impact of microbial diversity loss on anaerobic methane (CH4) oxidation and arsenic (As) reduction under flooded conditions remains unclear. In this study, we inoculated microbial suspensions into natural As-contaminated paddy soils using a dilution approach (untreated, 10-2, 10-4, 10-6, 10-8 dilutions) to manipulate microbial diversity levels. The results revealed that the 10-4 and 10-6 dilutions resulted in the highest CH4 emissions (97.0 μmol and 102.3 μmol) compared to untreated groups (27.6 μmol). However, anaerobic CH4 oxidation was not observed in 10-4 dilution groups and higher dilutions, suggesting the loss of diversity inhibited the natural reduction of CH4. Moreover, the porewater As concentration in the dilution groups was 1.8-8.2 times greater than in the untreated groups. The loss of microbial diversity promoted the reductive dissolution of iron (Fe) minerals bearing As, leading to increased concentrations of Fe(II) and dissolved organic carbon (DOC), which further enhanced As release (Fe(II), R = 0.9, p < 0.001) (DOC, R = 0.8, p < 0.001) from soil to porewater. However, CH4-dependent As(V) reduction was almost entirely inhibited under diversity loss. The decline in microbial diversity increased the relative abundances of methanogens (e.g., Methanobacterium and Methanomassiliicoccus), Fe(III)/As(V)-reducing bacteria (e.g., Bacillus, Clostridium_sensu_stricto_10, and Geobacter), and the related functional genes (i.e., mcrA and Geo). These findings suggest that microbial diversity is critical for specialized soil processes, highlighting the detrimental effects of biodiversity loss on CH4 emissions and As release in As-contaminated paddies.
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Affiliation(s)
- Ouyuan Jiang
- Institute of Carbon Neutrality, Zhejiang University, Hangzhou 310027, China; Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Yun Chen
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Chao Li
- Institute of Carbon Neutrality, Zhejiang University, Hangzhou 310027, China.
| | - Xueling Yang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
| | - Williamson Gustave
- Chemistry, Environmental & Life Sciences, University of The Bahamas, New Providence, Nassau, the Bahamas
| | - Xianjin Tang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou 310058, China
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2
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MacIntosh A, Dafforn K, Chariton A, Koppel D, Cresswell T, Gissi F. Response of Microbial Communities to Naturally Occurring Radioactive Material-Contaminated Sediments: A Microcosm-Based Study. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2024; 43:1648-1661. [PMID: 38819030 DOI: 10.1002/etc.5887] [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: 03/06/2024] [Revised: 03/31/2024] [Accepted: 04/10/2024] [Indexed: 06/01/2024]
Abstract
There is a growing need to understand the potential ecological impacts of contaminants in offshore oil and gas infrastructure, especially if that infrastructure is to be left in situ as a decommissioning option. Naturally occurring radioactive material (NORM) is one type of contaminant found in solid deposits on internal surfaces of infrastructure that poses potential ecological harm if released into the marine environment. Microbes are important components of marine sediment ecosystems because they provide ecosystem services, yet the impacts of NORM contamination to these communities are not well understood. The present study aimed to investigate the response of benthic microbial communities to NORM-contaminated scale, collected from an offshore oil and gas system, via controlled laboratory microcosm studies. Changes to microbial communities in natural sediment and sediments spiked with NORM at radium-226 activity concentrations ranging from 9.5 to 59.8 Bq/kg (in partial equilibria with progeny) over 7 and 28 days were investigated using high-throughput sequencing of environmental DNA extracted from experimental sediments. There were no significant differences in microbial community composition between control and scale-spiked sediments over 7 and 28 days. However, we observed a greater presence of Firmicutes in the scale-mixed treatment and Chloroflexi in the scale-surface treatments after 28 days. This could suggest selection for species with contaminant tolerance or potential resilience to radiation and metal toxicity. Further research is needed to explore microbial tolerance mechanisms and their potential as indicators of effects of radionuclide-contaminated sediments. The present study demonstrated that microcosm studies can provide valuable insights about the potential impacts of contamination from oil and gas infrastructure to sediment microbial communities. Environ Toxicol Chem 2024;43:1648-1661. © 2024 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.
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Affiliation(s)
- Amy MacIntosh
- Australian Nuclear Science and Technology Organisation, Lucas Heights, New South Wales, Australia
- School of Natural Sciences, Wallumattagal Campus, Macquarie University, Sydney, New South Wales, Australia
| | - Katherine Dafforn
- School of Natural Sciences, Wallumattagal Campus, Macquarie University, Sydney, New South Wales, Australia
| | - Anthony Chariton
- School of Natural Sciences, Wallumattagal Campus, Macquarie University, Sydney, New South Wales, Australia
| | - Darren Koppel
- Australian Institute of Marine Science, Indian Ocean Marine Research Centre, Perth, Western Australia, Australia
| | - Tom Cresswell
- Australian Nuclear Science and Technology Organisation, Lucas Heights, New South Wales, Australia
| | - Francesca Gissi
- Australian Nuclear Science and Technology Organisation, Lucas Heights, New South Wales, Australia
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Afzal M, Muhammad S, Tan D, Kaleem S, Khattak AA, Wang X, Chen X, Ma L, Mo J, Muhammad N, Jan M, Tan Z. The Effects of Heavy Metal Pollution on Soil Nitrogen Transformation and Rice Volatile Organic Compounds under Different Water Management Practices. PLANTS (BASEL, SWITZERLAND) 2024; 13:871. [PMID: 38592896 PMCID: PMC10976017 DOI: 10.3390/plants13060871] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2024] [Revised: 02/26/2024] [Accepted: 03/04/2024] [Indexed: 04/11/2024]
Abstract
One of the most concerning global environmental issues is the pollution of agricultural soils by heavy metals (HMs), especially cadmium, which not only affects human health through Cd-containing foods but also impacts the quality of rice. The soil's nitrification and denitrification processes, coupled with the release of volatile organic compounds by plants, raise substantial concerns. In this review, we summarize the recent literature related to the deleterious effects of Cd on both soil processes related to the N cycle and rice quality, particularly aroma, in different water management practices. Under both continuous flooding (CF) and alternate wetting and drying (AWD) conditions, cadmium has been observed to reduce both the nitrification and denitrification processes. The adverse effects are more pronounced in alternate wetting and drying (AWD) as compared to continuous flooding (CF). Similarly, the alteration in rice aroma is more significant in AWD than in CF. The precise modulation of volatile organic compounds (VOCs) by Cd remains unclear based on the available literature. Nevertheless, HM accumulation is higher in AWD conditions compared to CF, leading to a detrimental impact on volatile organic compounds (VOCs). The literature concludes that AWD practices should be avoided in Cd-contaminated fields to decrease accumulation and maintain the quality of the rice. In the future, rhizospheric engineering and plant biotechnology can be used to decrease the transport of HMs from the soil to the plant's edible parts.
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Affiliation(s)
- Muhammad Afzal
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
- Guangdong Provincial Key Laboratory of Utilization and Conservation of Food and Medicinal Resources in Northern Region, Shaoguan University, Shaoguan 512005, China;
| | - Sajid Muhammad
- College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Dedong Tan
- School of Resources Environment and Safety Engineering, University of South China, Hengyang 421001, China;
| | - Sidra Kaleem
- Riphah Institute of Pharmaceutical Sciences, Islamabad 44600, Pakistan;
| | - Arif Ali Khattak
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
| | - Xiaolin Wang
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
| | - Xiaoyuan Chen
- Guangdong Provincial Key Laboratory of Utilization and Conservation of Food and Medicinal Resources in Northern Region, Shaoguan University, Shaoguan 512005, China;
| | - Liangfang Ma
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
| | - Jingzhi Mo
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
| | - Niaz Muhammad
- Department of Microbiology, Kohat University of Science and Technology, Kohat 26000, Pakistan;
| | - Mehmood Jan
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
- Guangdong Provincial Key Laboratory of Utilization and Conservation of Food and Medicinal Resources in Northern Region, Shaoguan University, Shaoguan 512005, China;
| | - Zhiyuan Tan
- College of Agriculture, South China Agricultural University, Guangzhou 510642, China; (M.A.); (A.A.K.); (X.W.); (L.M.)
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Pesce S, Mamy L, Sanchez W, Artigas J, Bérard A, Betoulle S, Chaumot A, Coutellec MA, Crouzet O, Faburé J, Hedde M, Leboulanger C, Margoum C, Martin-Laurent F, Morin S, Mougin C, Munaron D, Nélieu S, Pelosi C, Leenhardt S. The use of copper as plant protection product contributes to environmental contamination and resulting impacts on terrestrial and aquatic biodiversity and ecosystem functions. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024:10.1007/s11356-024-32145-z. [PMID: 38324154 DOI: 10.1007/s11356-024-32145-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Accepted: 01/18/2024] [Indexed: 02/08/2024]
Abstract
Copper-based plant protection products (PPPs) are widely used in both conventional and organic farming, and to a lesser extent for non-agricultural maintenance of gardens, greenspaces, and infrastructures. The use of copper PPPs adds to environmental contamination by this trace element. This paper aims to review the contribution of these PPPs to the contamination of soils and waters by copper in the context of France (which can be extrapolated to most of the European countries), and the resulting impacts on terrestrial and aquatic biodiversity, as well as on ecosystem functions. It was produced in the framework of a collective scientific assessment on the impacts of PPPs on biodiversity and ecosystem services in France. Current science shows that copper, which persists in soils, can partially transfer to adjacent aquatic environments (surface water and sediment) and ultimately to the marine environment. This widespread contamination impacts biodiversity and ecosystem functions, chiefly through its effects on phototrophic and heterotrophic microbial communities, and terrestrial and aquatic invertebrates. Its effects on other biological groups and biotic interactions remain relatively under-documented.
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Affiliation(s)
| | - Laure Mamy
- Université Paris-Saclay, INRAE, AgroParisTech, UMR ECOSYS, 91120, Palaiseau, France
| | | | - Joan Artigas
- Université Clermont Auvergne, CNRS, Laboratoire Microorganismes: Génome Et Environnement (LMGE), 63000, Clermont-Ferrand, France
| | - Annette Bérard
- INRAE, Avignon Université, UMR EMMAH, 84000, Avignon, France
| | - Stéphane Betoulle
- Université de Reims Champagne-Ardenne, Normandie Université, ULH, INERIS, SEBIO, UMR-I 02, 51100, Reims, France
| | | | - Marie-Agnès Coutellec
- DECOD (Ecosystem Dynamics and Sustainability), INRAE, Institut Agro-Agrocampus Ouest, IFREMER, Rennes, France
| | - Olivier Crouzet
- OFB, Direction Recherche Et Appui Scientifique, Service Santé-Agri, 78610, Auffargis, France
| | - Juliette Faburé
- Université Paris-Saclay, INRAE, AgroParisTech, UMR ECOSYS, 91120, Palaiseau, France
| | | | | | | | - Fabrice Martin-Laurent
- Agroécologie, Institut Agro, INRAE, Université Bourgogne-Franche-Comté, 21110, Dijon, France
| | | | - Christian Mougin
- Université Paris-Saclay, INRAE, AgroParisTech, UMR ECOSYS, 91120, Palaiseau, France
| | | | - Sylvie Nélieu
- Université Paris-Saclay, INRAE, AgroParisTech, UMR ECOSYS, 91120, Palaiseau, France
| | - Céline Pelosi
- INRAE, Avignon Université, UMR EMMAH, 84000, Avignon, France
| | - Sophie Leenhardt
- INRAE, Directorate for Collective Scientific Assessment, Foresight and Advanced Studies, 75338, Paris, France
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Ma L, Zhang L, Zhang S, Zhou M, Huang W, Zou X, He Z, Shu L. Soil protists are more resilient to the combined effect of microplastics and heavy metals than bacterial communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167645. [PMID: 37806593 DOI: 10.1016/j.scitotenv.2023.167645] [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: 07/23/2023] [Revised: 09/26/2023] [Accepted: 10/05/2023] [Indexed: 10/10/2023]
Abstract
Heavy metals and micro-/nanoplastic pollution seriously threaten the environment and ecosystems. While many studies investigated their effects on diverse microbes, few studies have focused on soil protists, and it is unclear how soil protists respond to the combined effect of micro-/nanoplastics and heavy metals. This study investigated how soil protistan and bacterial communities respond to single or combined copper and micro-/nanoplastics. The bacterial community exhibited an instantaneous response to single copper pollution, whereas the combined pollution resulted in a hysteresis effect on the protistan community. Single and combined pollution inhibited the predation of protists and changed the construction of ecological networks. Though single and combined pollution did not significantly affect the overall community structure, the exposure experiment indicated that combined pollution harmed soil amoeba's fitness. These findings offer valuable new insights into the toxic effects of single and combined pollution of copper and plastics on soil protistan and bacterial communities. Additionally, this study shows that sequencing-based analyses cannot fully reflect pollutants' adverse effects, and both culture-independent and dependent methods are needed to reveal the impact of pollutants on soil microbes.
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Affiliation(s)
- Lu Ma
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Lin Zhang
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Siyi Zhang
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Min Zhou
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Wei Huang
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Xinyue Zou
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Zhili He
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China
| | - Longfei Shu
- School of Environmental Science and Engineering, Environmental Microbiomics Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, State Key Laboratory for Biocontrol, Sun Yat-sen University, Guangzhou 510006, China.
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Pierangeli GMF, da Silva KMR, Coelho LHG, Benassi RF, Domingues MR, Gregoracci GB. Effects of metal contamination with physicochemical properties on the sediment microbial communities in a tropical eutrophic-hypereutrophic urban reservoir in Brazil. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:54961-54978. [PMID: 36881227 DOI: 10.1007/s11356-023-26114-1] [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: 08/10/2022] [Accepted: 02/21/2023] [Indexed: 06/18/2023]
Abstract
We investigated the effects of metals and physicochemical variables on the microbes and their metabolisms in the sediments of Guarapiranga reservoir, a tropical eutrophic-hypereutrophic freshwater reservoir located in a highly urbanized and industrialized area in Brazil. The metals cadmium, copper, and chromium showed minor contribution to changes in the structure, composition, and richness of sediment microbial communities and functions. However, the effects of metals on the microbiota are increased when taken together with physicochemical properties, including the sediment carbon and sulfur, the bottom water electrical conductivity, and the depth of the water column. Clearly, diverse anthropic activities, such as sewage discharge, copper sulfate application to control algal growth, water transfer, urbanization, and industrialization, contribute to increase these parameters and the metals spatially in the reservoir. Microbes found especially in metal-contaminated sites encompassed Bathyarchaeia, MBG-D and DHVEG-1, Halosiccatus, Candidatus Methanoperedens, Anaeromyxobacter, Sva0485, Thermodesulfovibrionia, Acidobacteria, and SJA-15, possibly showing metal resistance or acting in metal bioremediation. Knallgas bacteria, nitrate ammonification, sulfate respiration, and methanotrophy were inferred to occur in metal-contaminated sites and may also contribute to metal removal. This knowledge about the sediment microbiota and metabolisms in a freshwater reservoir impacted by anthropic activities allows new insights about their potential for metal bioremediation in these environments.
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Affiliation(s)
- Gabrielle Maria Fonseca Pierangeli
- Institute of Marine Sciences, Federal University of São Paulo, Rua Dr. Carvalho de Mendonça, 144, Vila Belmiro, Santos, SP, 11070-100, Brazil
| | - Karine Mirelle Rodrigues da Silva
- Center of Engineering, Modeling and Applied Social Sciences, Federal University of ABC, Av dos Estados, 5001, Santo André, SP, 09210-580, Brazil
| | - Lucia Helena Gomes Coelho
- Center of Engineering, Modeling and Applied Social Sciences, Federal University of ABC, Av dos Estados, 5001, Santo André, SP, 09210-580, Brazil.
| | - Roseli Frederigi Benassi
- Center of Engineering, Modeling and Applied Social Sciences, Federal University of ABC, Av dos Estados, 5001, Santo André, SP, 09210-580, Brazil
| | - Mercia Regina Domingues
- Center of Engineering, Modeling and Applied Social Sciences, Federal University of ABC, Av dos Estados, 5001, Santo André, SP, 09210-580, Brazil
| | - Gustavo Bueno Gregoracci
- Institute of Marine Sciences, Federal University of São Paulo, Rua Dr. Carvalho de Mendonça, 144, Vila Belmiro, Santos, SP, 11070-100, Brazil
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Kergoat L, Dabrin A, Masson M, Datry T, Bonnineau C. Clogging modulates the copper effects on microbial communities of streambed sediments. ECOTOXICOLOGY (LONDON, ENGLAND) 2023; 32:321-335. [PMID: 36930439 DOI: 10.1007/s10646-023-02641-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 02/28/2023] [Indexed: 06/18/2023]
Abstract
The hyporheic zone, i.e. the water-saturated sediment beneath and alongside the riverbed, is exposed to multiple stressors. Agricultural-watershed rivers are frequently exposed to two concomitant stressors: clogging and copper contamination. However, one stressor exposure can increase sensitivity to a second stressor. The aim of this study was to experimentally test the cumulative effects of these two stressors on copper distribution and structural and functional microbial communities responses in the hyporheic zone. A slow filtration column experiment was conducted to compare the effects of 3 treatments of increasing complexity: 'Reference', 'Copper-contaminated' (dissolved copper added at 191 µg L-1), and 'Clogging+Copper' (dissolved copper + addition of 2 cm of fine sediment). Microbial community structure and activities were studied at 4 column sediment depths. The results showed that clogging did not modify the distribution of copper, which remained fixed in the first few centimetres. In the first few centimetres, clogging had a stimulating effect on microbial activities whereas copper had limited effects mainly on leucine aminopeptidase activity and microbial community tolerance to copper. The subsurface zone thus hosts significant different microbial communities from the communities in the deeper zones that were protected from surface stressors. This experiment confirms the valuable filtering role played by the hyporheic zone and shows that microbial responses are strongly correlated to microhabitat-scale physicochemical conditions in sediment.
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Noyer M, Bernard M, Verneau O, Palacios C. Insights on the particle-attached riverine archaeal community shifts linked to seasons and to multipollution during a Mediterranean extreme storm event. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:49685-49702. [PMID: 36780079 DOI: 10.1007/s11356-023-25637-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Accepted: 01/26/2023] [Indexed: 02/14/2023]
Abstract
Even if Archaea deliver important ecosystem services and are major players in global biogeochemical cycles, they remain poorly understood in freshwater ecosystems. To our knowledge, no studies specifically address the direct impact of xenobiotics on the riverine archaeome. Using environmental DNA metabarcoding of the 16S ribosomal gene, we previously demonstrated bacterial communities significant shifts linked to pollutant mixtures during an extreme flood in a typical Mediterranean coastal watercourse. Here, using the same methodology, we sought to determine whether archaeal community shifts coincided with the delivery of environmental stressors during the same flood. Further, we wanted to determine how archaea taxa compared at different seasons. In contrast to the bacteriome, the archaeome showed a specific community in summer compared to winter and autumn. We also identified a significant relationship between in situ archaeome shifts and changes in physicochemical parameters along the flood, but a less marked link to those parameters correlated to river hydrodynamics than bacteria. New urban-specific archaeal taxa significantly related to multiple stressors were identified. Through statistical modeling of both domains, our results demonstrate that Archaea, seldom considered as bioindicators of water quality, have the potential to improve monitoring methods of watersheds.
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Affiliation(s)
- Mégane Noyer
- Univ. Perpignan Via Domitia, Cefrem, UMR5110, F-66860, Perpignan, France.,Centre de Formation et de Recherche sur les Environnements Méditerranéens, UMR 5110 CNRS-UPVD Université de Perpignan Via Domitia 52 Avenue Paul Alduy 66860, Perpignan Cedex, France
| | - Maria Bernard
- Univ. Paris-Saclay, INRAE, AgroParisTech, GABI, 78350, Jouy-en-Josas, France.,INRAE, SIGENAE, 78350, Jouy-en-Josas, France
| | - Olivier Verneau
- Univ. Perpignan Via Domitia, Cefrem, UMR5110, F-66860, Perpignan, France.,Centre de Formation et de Recherche sur les Environnements Méditerranéens, UMR 5110 CNRS-UPVD Université de Perpignan Via Domitia 52 Avenue Paul Alduy 66860, Perpignan Cedex, France.,Unit. for Environmental Sciences and Management, North-West University, Potchefstroom, ZA-2520, South Africa
| | - Carmen Palacios
- Univ. Perpignan Via Domitia, Cefrem, UMR5110, F-66860, Perpignan, France. .,Centre de Formation et de Recherche sur les Environnements Méditerranéens, UMR 5110 CNRS-UPVD Université de Perpignan Via Domitia 52 Avenue Paul Alduy 66860, Perpignan Cedex, France.
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Yu L, Cao Q, Chen W, Yang N, Yang CG, Ji Q, Wu M, Bae T, Lan L. A novel copper-sensing two-component system for inducing Dsb gene expression in bacteria. Sci Bull (Beijing) 2022; 67:198-212. [PMID: 36546013 DOI: 10.1016/j.scib.2021.03.003] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Revised: 01/15/2021] [Accepted: 03/01/2021] [Indexed: 01/06/2023]
Abstract
In nature, bacteria must sense copper and tightly regulate gene expression to evade copper toxicity. Here, we identify a new copper-responsive two-component system named DsbRS in the important human pathogen Pseudomonas aeruginosa; in this system, DsbS is a sensor histidine kinase, and DsbR, its cognate response regulator, directly induces the transcription of genes involved in protein disulfide bond formation (Dsb) (i.e., the dsbDEG operon and dsbB). In the absence of copper, DsbS acts as a phosphatase toward DsbR, thus blocking the transcription of Dsb genes. In the presence of copper, the metal ion directly binds to the sensor domain of DsbS, and the Cys82 residue plays a critical role in this process. The copper-binding behavior appears to inhibit the phosphatase activity of DsbS, leading to the activation of DsbR. The copper resistance of the dsbRS knock-out mutant is restored by the ectopic expression of the dsbDEG operon, which is a DsbRS major target. Strikingly, cognates of the dsbRS-dsbDEG pair are widely distributed across eubacteria. In addition, a DsbR-binding site, which contains the consensus sequence 5'-TTA-N8-TTAA-3', is detected in the promoter region of dsbDEG homologs in these species. These findings suggest that the regulation of Dsb genes by DsbRS represents a novel mechanism by which bacterial cells cope with copper stress.
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Affiliation(s)
- Liang Yu
- University of Chinese Academy of Sciences, Beijing 100049, China; State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Qiao Cao
- State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Weizhong Chen
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China
| | - Nana Yang
- University of Chinese Academy of Sciences, Beijing 100049, China; State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China
| | - Cai-Guang Yang
- University of Chinese Academy of Sciences, Beijing 100049, China; State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; School of Pharmaceutical Science and Technology, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, China
| | - Quanjiang Ji
- School of Physical Science and Technology, ShanghaiTech University, Shanghai 201210, China
| | - Min Wu
- Department of Biomedical Sciences, University of North Dakota, Grand Forks ND 58203-9037, USA
| | - Taeok Bae
- Department of Microbiology and Immunology, Indiana University School of Medicine-Northwest, Gary IN 46408, USA
| | - Lefu Lan
- University of Chinese Academy of Sciences, Beijing 100049, China; State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China; School of Pharmaceutical Science and Technology, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, China; NMPA Key Laboratory for Testing Technology of Pharmaceutical Microbiology, Shanghai Institute for Food and Drug Control, Shanghai 201203, China.
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10
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Wang C, Yuan Z, Sun Y, Yao X, Li R, Li S. Effect of Chronic Exposure to Textile Wastewater Treatment Plant Effluents on Growth Performance, Oxidative Stress, and Intestinal Microbiota in Adult Zebrafish ( Danio rerio). Front Microbiol 2021; 12:782611. [PMID: 34899664 PMCID: PMC8656261 DOI: 10.3389/fmicb.2021.782611] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2021] [Accepted: 10/28/2021] [Indexed: 01/30/2023] Open
Abstract
The ever-increasing production and processing of textiles will lead to greater risks of releasing pollutants into the environment. Textile wastewater treatment plants (TWTPs) effluent are an important source of persistent toxic pollutants in receiving water bodies. The effects of specific pollutants on organisms are usually studied under laboratory conditions, and therefore, comprehensive results are not obtained regarding the chronic combined effects of pollutants under aquatic environmental conditions. Thus, this study aimed to determine the combined effects of TWTP effluents on the growth performance, oxidative stress, inflammatory response, and intestinal microbiota of adult zebrafish (Danio rerio). Exposure to TWTP effluents significantly inhibited growth, exacerbated the condition factor, and increased the mortality of adult zebrafish. Moreover, markedly decreases were observed in the activities of antioxidant enzymes, such as CAT, GSH, GSH-Px, MDA, SOD, and T-AOC, mostly in the intestine and muscle tissues of zebrafish after 1 and 4 months of exposure. In addition, the results demonstrated that TWTP effluent exposure affected the intestinal microbial community composition and decreased community diversity. Slight changes were found in the relative abundance of probiotic Lactobacillus, Akkermansia, and Lactococcus in zebrafish guts after chronic TWTP effluent exposure. The chronic toxic effects of slight increases in opportunistic pathogens, such as Mycoplasma, Stenotrophomonas, and Vibrio, deserve further attention. Our results reveal that TWTP effluent exposure poses potential health risks to aquatic organisms through growth inhibition, oxidative stress impairment of the intestine and muscles, and intestinal microbial community alterations.
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Affiliation(s)
- Chun Wang
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, China.,State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, China
| | - Zixi Yuan
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, China.,State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, China
| | - Yingxue Sun
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, China.,State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, China
| | - Xiaolong Yao
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, China.,State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, China
| | - Ruixuan Li
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, China.,State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, China
| | - Shuangshuang Li
- College of Energy and Environmental Engineering, Hebei University of Engineering, Handan, China
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11
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Lyautey E, Bonnineau C, Billard P, Loizeau JL, Naffrechoux E, Tlili A, Topp E, Ferrari BJD, Pesce S. Diversity, Functions and Antibiotic Resistance of Sediment Microbial Communities From Lake Geneva Are Driven by the Spatial Distribution of Anthropogenic Contamination. Front Microbiol 2021; 12:738629. [PMID: 34733255 PMCID: PMC8560053 DOI: 10.3389/fmicb.2021.738629] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Accepted: 09/28/2021] [Indexed: 11/17/2022] Open
Abstract
Lake sediments are natural receptors for a wide range of anthropogenic contaminants including organic matter and toxicants such as trace metals, polycyclic aromatic hydrocarbons, polychlorinated biphenyls that accumulate over time. This contamination can impact benthic communities, including microorganisms which play a crucial role in biogeochemical cycling and food-webs. The present survey aimed at exploring whether anthropogenic contamination, at a large lake scale, can influence the diversity, structure and functions of microbial communities associated to surface sediment, as well as their genetic potential for resistance to metals and antibiotics. Changes in the characteristics of these communities were assessed in surface sediments collected in Lake Geneva from eight sampling sites in October 2017 and May 2018. These sampling sites were characterized by a large concentration range of metal and organic compound contamination. Variation between the two sampling periods were very limited for all sampling sites and measured microbial parameters. In contrast, spatial variations were observed, with two sites being distinct from each other, and from the other six sites. Benthic communities from the most contaminated sampling site (Vidy Bay, near the city of Lausanne) were characterized by the lowest bacterial and archaeal diversity, a distinct community composition, the highest abundance of antibiotic resistance genes and functional (respiration, denitrification, methanogenesis, phosphatase, and beta-glucosidase) activity levels. The second sampling site which is highly influenced by inputs from the Rhône River, exhibited low levels of diversity, a distinct community composition, high abundance of antibiotic resistance genes and the highest bacterial abundance. Overall, our results suggest that local anthropogenic contamination, including organic matter and toxicants, is a major driver of the diversity and functioning of sediment-microbial communities in Lake Geneva. This highlights the need to consider benthic microbial communities and a suite of complementary ecotoxicological endpoints for more effective environmental risk assessments of contaminants in lake sediments.
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Affiliation(s)
- Emilie Lyautey
- INRAE UR RiverLy, Villeurbanne, France.,INRAE, Université Savoie Mont Blanc, CARRTEL, Thonon-les-Bains, France
| | | | | | - Jean-Luc Loizeau
- Department F.A. Forel for Environmental and Aquatic Sciences, University of Geneva, Geneva, Switzerland
| | | | - Ahmed Tlili
- Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland
| | - Edward Topp
- Agriculture and Agri-Food Canada, London, ON, Canada.,Department of Biology, University of Western Ontario, London, ON, Canada
| | - Benoît J D Ferrari
- Swiss Centre for Applied Ecotoxicology (Ecotox Centre), Lausanne, Switzerland
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12
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Wang L, Li Y, Zhao Z, Cordier T, Worms IA, Niu L, Fan C, Slaveykova VI. Microbial community diversity and composition in river sediments contaminated with tetrabromobisphenol A and copper. CHEMOSPHERE 2021; 272:129855. [PMID: 35534962 DOI: 10.1016/j.chemosphere.2021.129855] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/25/2020] [Revised: 01/24/2021] [Accepted: 02/01/2021] [Indexed: 06/14/2023]
Abstract
The microbial community composition in aquatic ecosystems have received increased attention. However, the knowledge gap relative to the responses of bacterial, archaeal and fungal communities in co-contaminated river sediments remain poorly studied. Here, we investigated the changes of tetrabromobisphenol A (TBBPA) and copper (Cu) concentrations and the responses of microbial communities in co-contaminated sediments during long-term incubation. TBBPA concentrations significantly decreased over time, whereas Cu concentrations remained relatively stable over the 60-day incubation. Abundances of the bacterial 16S rRNA, archaeal 16S rRNA and fungal ITS genes ranged from 6.53 × 106 to 1.26 × 109 copies g-1, 1.12 × 106 to 5.47 × 106 copies g-1 and 5.33 × 103 to 7.51 × 104 copies g-1 in the samples, respectively. A total of 11, 6 and 5 bacterial, archaeal and fungal phyla were identified across all samples. Bacterial, archaeal and fungal communities mainly consisted of members from the phyla Proteobacteria and Acidobacteria, Methanomicrobia and Woesearchaeia as well as Agaricales and Helotiales, respectively. Fungal communities showed a stronger response to pollutant addition after a long incubation compared with bacterial and archaeal communities. The variance analysis results revealed that the bacterial, archaeal and fungal microbial communities of all treatments were distinctly distributed into two separated clusters according to incubation time. However, the three microbial communities did not significantly change in response to pollutant types, which was consistent with variation in relative abundances of the three microbial communities. These findings improve our understanding of the ecotoxicological effects of co-exposure on sediment microbial communities.
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Affiliation(s)
- Linqiong Wang
- Key Laboratory of Marine Hazards Forecasting, Ministry of Natural Resources, Hohai University, Nanjing, 210098, PR China; College of Oceanography, Hohai University, Nanjing, 210098, PR China; College of Environment, Hohai University, Nanjing, 210098, PR China
| | - Yi Li
- College of Environment, Hohai University, Nanjing, 210098, PR China.
| | - Zhe Zhao
- Key Laboratory of Marine Hazards Forecasting, Ministry of Natural Resources, Hohai University, Nanjing, 210098, PR China; College of Oceanography, Hohai University, Nanjing, 210098, PR China
| | - Tristan Cordier
- Department of Genetics and Evolution, University of Geneva, Science III, 4 Boulevard D'Yvoy, 1205 Geneva, Switzerland
| | - Isabelle A Worms
- Faculty of Sciences, Earth and Environmental Sciences, Department F.-A. Forel for Environmental and Aquatic Sciences, University of Geneva, Uni Carl Vogt, 66 Bvd. Carl Vogt, CH-1211, Geneva, Switzerland
| | - Lihua Niu
- College of Environment, Hohai University, Nanjing, 210098, PR China
| | - Chenyang Fan
- College of Environment, Hohai University, Nanjing, 210098, PR China
| | - Vera I Slaveykova
- Faculty of Sciences, Earth and Environmental Sciences, Department F.-A. Forel for Environmental and Aquatic Sciences, University of Geneva, Uni Carl Vogt, 66 Bvd. Carl Vogt, CH-1211, Geneva, Switzerland.
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13
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He J, Ma S, Liu L, Liu C, Dong S. A comparison study of test organism species and methodologies for combined toxicity assay of copper ions and zinc ions. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:45992-46002. [PMID: 33140302 DOI: 10.1007/s11356-020-11444-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Accepted: 10/27/2020] [Indexed: 06/11/2023]
Abstract
The general toxicity assays for evaluating the risk of aquatic environment were commonly based on single-species test organism models. Thus, the lack and conflict of the different responses among species had hindered researchers to assess the real toxicity of a target toxicant. Therefore, the difference between the test species and their corresponding methodologies was investigated in this work and three species, Escherichia coli, Saccharomyces cerevisiae and Misgurnus anguillicaudatus (a fish), were chosen as the test organism for typical prokaryotes, eukaryotes, and vertebrates, respectively. More specifically, we investigated (i) the individual and combined toxicity of Cu2+ and Zn2+ by the three test organisms; (ii) the different evaluation manners for the test organisms, including IC50 and toxic unit (TU) model for microorganisms by respiratory toxicity assay and enzyme-substrate assay, while survival time for fish; and (iii) the states of test organism, including suspended and immobilized states for microorganisms. The combined effects, including synergistic (Vt < Vp), antagonistic (Vt > Vp) and additive effects for the three species, were complex as that they were usually dose-dependent and could be changed by the different evaluation manners. The present work was useful for enriching of the associated theory and the insights from this work could open the way for further practical risk assessments.
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Affiliation(s)
- Jingting He
- College of Pharmacy, Jinzhou Medical University, Jinzhou, 121001, People's Republic of China
| | - Shuaining Ma
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, 130022, People's Republic of China
| | - Ling Liu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, 130022, People's Republic of China.
| | - Chang Liu
- College of Pharmacy, Jinzhou Medical University, Jinzhou, 121001, People's Republic of China.
| | - Shaojun Dong
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, 130022, People's Republic of China
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14
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Pesce S, Ghiglione JF, Topp E, Martin-Laurent F. Editorial: Microbial Ecotoxicology. Front Microbiol 2020; 11:1342. [PMID: 32676059 PMCID: PMC7333374 DOI: 10.3389/fmicb.2020.01342] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Accepted: 05/26/2020] [Indexed: 12/12/2022] Open
Affiliation(s)
| | - Jean-François Ghiglione
- CNRS, UMR 7621 Laboratoire d'Océanographie Microbienne, Sorbonne Université, Observatoire Océanologique de Banyuls-sur-Mer, Banyuls-sur-Mer, France
| | - Edward Topp
- Agriculture and Agri-Food Canada, University of Western Ontario, London, ON, Canada
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRAE, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
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