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Liu H, Wang H, Nie Z, Tao Z, Peng H, Shi H, Zhao P, Liu H. Combined application of arbuscular mycorrhizal fungi and selenium fertilizer increased wheat biomass under cadmium stress and shapes rhizosphere soil microbial communities. BMC PLANT BIOLOGY 2024; 24:359. [PMID: 38698306 PMCID: PMC11067182 DOI: 10.1186/s12870-024-05032-5] [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: 12/29/2023] [Accepted: 04/16/2024] [Indexed: 05/05/2024]
Abstract
BACKGROUND Selenium (Se) fertilizer and arbuscular mycorrhizal fungi (AMF) are known to modulate cadmium (Cd) toxicity in plants. However, the effects of their co-application on wheat growth and soil microbial communities in Cd-contaminated soil are unclear. RESULTS A pot experiment inoculation with two types of AMF and the application of Se fertilizer under Cd stress in wheat showed that inoculation AMF alone or combined with Se fertilizer significantly increased wheat biomass. Se and AMF alone or in combination significantly reduced available Cd concentration in wheat and soil, especially in the Se combined with Ri treatment. High throughput sequencing of soil samples indicated that Se and AMF application had stronger influence on bacterial community compared to fungal community and the bacterial network seemed to have more complex interconnections than the fungal network, and finally shaped the formation of specific microflora to affect Cd availability. CONCLUSION These results indicate that the application of Se and AMF, particularly in combination, could successfully decrease soil Cd availability and relieve the harm of Cd in wheat by modifying rhizosphere soil microbial communities.
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Affiliation(s)
- Haiyang Liu
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Haoquan Wang
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Zhaojun Nie
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Zhikang Tao
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Hongyu Peng
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Huazhong Shi
- Department of Chemistry and Biochemistry, Texas Tech University, Lubbock, TX, 79409, USA
| | - Peng Zhao
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Hongen Liu
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China.
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China.
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Guo J, Fu Q, Tang M, Bai J, Liu R, Zhang H, Siddique KHM, Mao H. Fulvic acid modified ZnO nanoparticles improve nanoparticle stability, mung bean growth, grain zinc content, and soil biodiversity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 913:169840. [PMID: 38184256 DOI: 10.1016/j.scitotenv.2023.169840] [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: 09/25/2023] [Revised: 12/12/2023] [Accepted: 12/30/2023] [Indexed: 01/08/2024]
Abstract
Zinc oxide nanoparticles (ZnO NPs) have emerged as a novel solution to combat Zn deficiency in agriculture. However, challenges persist regarding their Zn utilization efficiency and environmental impact. Fulvic acid (FA), as a relatively mature modified material, is a promising candidate to enhance the environmental stability of ZnO NPs. This study investigates modifying ZnO NPs with FA to improve their stability and increase Zn content in mung bean fruit and explores their effect on plants and the soil ecosystem. We combined FA and ZnO NPs (FZ-50) at mass ratios of 1: 5, 1: 2, and 4: 5, denoted as 20 % FZ, 50 % FZ, and 80 % FZ, respectively. Initial germination tests revealed that the 50 % FZ treatment improved sprout growth and Zn content and minimized agglomeration the most. A subsequent pot experiment compared FZ-50 with ZnO, ZnO NPs, and F + Z (1: 1 FA: ZnO NPs). Notably, the FZ-50 treatment (50 % FZ applied to the soil) demonstrated superior results, exhibiting a 30.25 % increase in yield, 121 % improvement in root nodule quality, and 56.38 % increase in Zn content, with no significant changes in enzyme activities (catalase and peroxidase). Furthermore, FZ-50 increased soil available Zn content and promoted soil microorganism diversity, outperforming ZnO and ZnO NPs. This study underscores the potential of FA as a relatively mature material for modifying ZnO NPs to increase grain Zn content, presenting a novel approach to addressing Zn deficiency in agriculture.
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Affiliation(s)
- Jiao Guo
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Qian Fu
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Mengshan Tang
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Junrui Bai
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Ruiyu Liu
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Haoyue Zhang
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China
| | - Kadambot H M Siddique
- The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia
| | - Hui Mao
- School of Resources and Environment, Northwest A&F University, Yangling, Shaanxi 712100, PR China; Key Laboratory of Plant Nutrition and the Agri-environment in Northwest China, Ministry of Agriculture, Yangling, Shaanxi 712100, PR China.
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3
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Li D, Zhang X, Chen J, Li J. Toxicity factors to assess the ecological risk for soil microbial communities. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 270:115867. [PMID: 38142592 DOI: 10.1016/j.ecoenv.2023.115867] [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: 09/26/2023] [Revised: 12/11/2023] [Accepted: 12/18/2023] [Indexed: 12/26/2023]
Abstract
The toxicity factor (TF), a critical parameter within the potential ecological risk index (RI), is determined without accounting for microbial factors. It is considerable uncertainty exists concerning its validity for quantitatively assessing the influence of metal(loid)s on microorganisms. To evaluate the suitability of TF, we constructed microcosm experiments with varying RI levels (RI = 100, 200, 300, 500, and 700) by externally adding zinc (Zn), chromium (Cr), copper (Cu), lead (Pb), nickel (Ni), cadmium (Cd), and mercury (Hg) to uncontaminated soil (CK). Quantitative real-time PCR (qPCR) and high-throughput sequencing techniques were employed to measure the abundance and community of bacteria and fungi, and high-throughput qPCR was utilised to quantify functional genes associated with CNPS cycles. The results demonstrated that microbial diversity and function exhibited significant alterations (p < 0.05) in response to increasing RI levels, and the influences on microbial community structure, enzyme activity, and functional gene abundances were different due to the types of metal(loid)s treatments. At the same RI level, significant differences (p < 0.05) were discerned in microbial diversity and function across metal(loid) treatments, and these differences became more pronounced (p < 0.001) at higher levels. These findings suggest that TF may not be suitable for the quantitative assessment of microbial ecological risk. Therefore, we adjusted the TF by following three steps (1) determining the adjustment criteria, (2) deriving the initial TF, and (3) adjusting and optimizing the TF. Ultimately, the optimal adjusted TF was established as Zn = 1.5, Cr = 4.5, Cu = 6, Pb = 4.5, Ni = 5, Cd = 22, and Hg = 34. Our results provide a new reference for quantitatively assessing the ecological risks caused by metal(loid)s to microorganisms.
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Affiliation(s)
- Dale Li
- Institute of Loess Plateau, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Xiujuan Zhang
- Institute of Loess Plateau, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Jianwen Chen
- Institute of Loess Plateau, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Junjian Li
- Institute of Loess Plateau, Shanxi University, Taiyuan, Shanxi 030006, China.
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Datta R. Enzymatic degradation of cellulose in soil: A review. Heliyon 2024; 10:e24022. [PMID: 38234915 PMCID: PMC10792583 DOI: 10.1016/j.heliyon.2024.e24022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Revised: 12/13/2023] [Accepted: 01/02/2024] [Indexed: 01/19/2024] Open
Abstract
Cellulose degradation is a critical process in soil ecosystems, playing a vital role in nutrient cycling and organic matter decomposition. Enzymatic degradation of cellulosic biomass is the most sustainable and green method of producing liquid biofuel. It has gained intensive research interest with future perspective as the majority of terrestrial lignocellulose biomass has a great potential to be used as a source of bioenergy. However, the recalcitrant nature of lignocellulose limits its use as a source of energy. Noteworthy enough, enzymatic conversion of cellulose biomass could be a leading future technology. Fungal enzymes play a central role in cellulose degradation. Our understanding of fungal cellulases has substantially redirected in the past few years with the discovery of a new class of enzymes and Cellulosome. Efforts have been made from time to time to develop an economically viable method of cellulose degradation. This review provides insights into the current state of knowledge regarding cellulose degradation in soil and identifies areas where further research is needed.
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Affiliation(s)
- Rahul Datta
- Department of Geology and Pedology, Faculty of Forestry and Wood Technology. Mendel University In Brno, Czech Republic
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5
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Jiang R, Wang M, Chen W. Heavy metal pollution triggers a shift from bacteria-based to fungi-based soil micro-food web: Evidence from an abandoned mining-smelting area. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132164. [PMID: 37598513 DOI: 10.1016/j.jhazmat.2023.132164] [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: 05/23/2023] [Revised: 07/13/2023] [Accepted: 07/25/2023] [Indexed: 08/22/2023]
Abstract
Heavy metals pose significant threats to soil biota, ultimately disrupting soil micro-food web. However, no studies have yet elucidated the impact of heavy metals on soil micro-food web. In this study, we explored the response of bacteria, fungi, nematodes, and soil micro-food web along a gradient of heavy metals in an abandoned smelting-mining area. We found that bacteria responded strongly to heavy metals, whereas fungi showed greater resistance and tolerance. Nematodes responses were less apparent. With the increasing levels of heavy metal pollution, the importance of heavy metal-tolerant organisms in micro-food webs increased significantly. For instance, the keystone bacteria in soil micro-food web shifted from copiotrophic to oligotrophic types, while the keystone nematodes shifted from to bacterial-feeding (e.g., Eucephalobus) to fungal-feeding species (e.g., Ditylenchus). Additionally, elevated heavy metal concentrations increased the proportion of fungi (e.g., Mortierellomycota), intensifying their interactions with bacteria and nematodes and causing a shift from bacteria-based to fungi-based soil micro-food web. Furthermore, heavy metal contamination induced a more complex and stable soil micro-food web. Overall, we highlight the changes in soil micro-food web as a mechanism for coping with heavy metal stress. Our study provides valuable insights into how heavy metal pollution can cause shifts in soil micro-food webs and has critical implications for enhancing our understanding of the ecological consequences of environmental pollution at the ecosystem level.
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Affiliation(s)
- Rong Jiang
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Meie Wang
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049,China.
| | - Weiping Chen
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049,China
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Al-Marri S, Eldos H, Ashfaq M, Saeed S, Skariah S, Varghese L, Mohamoud Y, Sultan A, Raja M. Isolation, identification, and screening of biosurfactant-producing and hydrocarbon-degrading bacteria from oil and gas industrial waste. BIOTECHNOLOGY REPORTS (AMSTERDAM, NETHERLANDS) 2023; 39:e00804. [PMID: 37388572 PMCID: PMC10300049 DOI: 10.1016/j.btre.2023.e00804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/12/2023] [Revised: 05/23/2023] [Accepted: 06/10/2023] [Indexed: 07/01/2023]
Abstract
Qatar is one of the biggest oil and gas producers in the world, coupled with it is challenging environmental conditions (high average temperature: >40 °C, low annual rainfall: 46.71 mm, and high annual evaporation rate: 2200 mm) harbors diverse microbial communities that are novel and robust, with the potential to biodegrade hydrocarbons. In this study, we collected hydrocarbon contaminated sludge, wastewater and soil samples from oil and gas industries in Qatar. Twenty-six bacterial strains were isolated in the laboratory from these samples using high saline conditions and crude oil as the sole carbon source. A total of 15 different bacterial genera were identified in our study that have not been widely reported in the literature or studied for their usage in the biodegradation of hydrocarbons. Interestingly, some of the bacteria that were identified belonged to the same genus however, demonstrated variable growth rates and biosurfactant production. This indicates the possibility of niche specialization and specific evolution to acquire competitive traits for better survival. The most potent strain EXS14, identified as Marinobacter sp., showed the highest growth rate in the oil-containing medium as well as the highest biosurfactant production. When this strain was further tested for biodegradation of hydrocarbons, the results showed that it was able to degrade 90 to 100% of low and medium molecular weight hydrocarbons and 60 to 80% of high molecular weight (C35 to C50) hydrocarbons. This study offers many promising leads for future studies of microbial species and their application for the treatment of hydrocarbon contaminated wastewater and soil in the region and in other areas with similar environmental conditions.
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Affiliation(s)
| | | | | | - S. Saeed
- ExxonMobil Research Qatar, Doha, Qatar
| | - S. Skariah
- Department of Microbiology and Immunology, Weill Cornell Medicine - Qatar, Education City, Qatar Foundation, P. O. Box 24144, Doha, Qatar
| | | | - Y.A. Mohamoud
- Department of Microbiology and Immunology, Weill Cornell Medicine - Qatar, Education City, Qatar Foundation, P. O. Box 24144, Doha, Qatar
| | - A.A. Sultan
- Department of Microbiology and Immunology, Weill Cornell Medicine - Qatar, Education City, Qatar Foundation, P. O. Box 24144, Doha, Qatar
| | - M.M. Raja
- Qatargas Operating Company, Doha, Qatar
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7
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Xu H, Huang Y, Xiong X, Zhu H, Lin J, Shi J, Tang C, Xu J. Changes in soil Cd contents and microbial communities following Cd-containing straw return. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 330:121753. [PMID: 37127235 DOI: 10.1016/j.envpol.2023.121753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2023] [Revised: 04/22/2023] [Accepted: 04/28/2023] [Indexed: 05/03/2023]
Abstract
Contamination of soil with cadmium (Cd) threatens food safety and human health. In general, crop straws from contaminated soils could accumulate considerable amounts of Cd. The addition of Cd-containing rice straw can have negative effects on soil environment. In this study, straws varying in Cd concentration were added to soil at a rate of 5% (w/w) to investigate the effects of Cd-containing straw on soil Cd dynamics and soil microbial communities. Results showed that large amounts of Cd, especially bioavailable Cd, were released into soil during the decomposition of Cd-containing straws. The addition of straws with 10, 20 and 40 mg kg-1 Cd increased total Cd in soils from 0.31 mg kg-1 to 0.89, 1.39 and 2.09 mg kg-1, respectively, exceeding the screening value of total Cd < 0.4 mg kg-1 for paddy soils of pH 5.5-6.5 according to Chinese Soil Environmental Quality Standards. Moreover, the addition of Cd-containing straw decreased alpha-diversity of bacterial and fungal communities compared to the clean straw. Indeed, changes in soil factors including pH, Eh, dissolved organic C and Cd level jointly reconstructed soil microbial communities. The addition of Cd-containing straw increased the relative abundance of bacterial species Acidobacteria and Proteobacteria but decreased that of Firmicutes. Meanwhile, it increased the relative abundance of fungal species Basidiomycota and Fusarium which were considered Cd-tolerant. This study revealed the potential environmental risk and the variation of microbial communities caused by increasing soil Cd bioavailability after direct application of Cd-containing rice straw to the field.
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Affiliation(s)
- Haojie Xu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Yu Huang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Xinquan Xiong
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Hang Zhu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Jiahui Lin
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Jiachun Shi
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Caixian Tang
- Department of Animal, Plant & Soil Sciences / La Trobe Institute for Sustainable Agriculture and Food, La Trobe University, Bundoora, Vic, 3086, Australia
| | - Jianming Xu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China.
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Prosenkov A, Cagnon C, Gallego JLR, Pelaez AI. The microbiome of a brownfield highly polluted with mercury and arsenic. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 323:121305. [PMID: 36804142 DOI: 10.1016/j.envpol.2023.121305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 02/11/2023] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
Abandoned brownfields represent a challenge for their recovery. To apply sustainable remediation technologies, such as bioremediation or phytoremediation, indigenous microorganisms are essential agents since they are adapted to the ecology of the soil. Better understanding of microbial communities inhabiting those soils, identification of microorganisms that drive detoxification process and recognising their needs and interactions will significantly improve the outcome of the remediation. With this in mind we have carried out a detailed metagenomic analysis to explore the taxonomic and functional diversity of the prokaryotic and eukaryotic microbial communities in soils, several mineralogically distinct types of pyrometallurgic waste, and groundwater sediments of a former mercury mining and metallurgy site which harbour very high levels of arsenic and mercury pollution. Prokaryotic and eukaryotic communities were identified, which turned out to be more diverse in the surrounding contaminated soils compared to the pyrometallurgic waste. The highest diversity loss was observed in two environments most contaminated with mercury and arsenic (stupp, a solid mercury condenser residue and arsenic-rich soot from arsenic condensers). Interestingly, microbial communities in the stupp were dominated by an overwhelming majority of archaea of the phylum Crenarchaeota, while Ascomycota and Basidiomycota fungi comprised the fungal communities of both stump and soot, results that show the impressive ability of these previously unreported microorganisms to colonize these extreme brownfield environments. Functional predictions for mercury and arsenic resistance/detoxification genes show their increase in environments with higher levels of pollution. Our work establishes the bases to design sustainable remediation methods and, equally important, to study in depth the genetic and functional mechanisms that enable the subsistence of microbial populations in these extremely selective environments.
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Affiliation(s)
- Alexander Prosenkov
- Area of Microbiology, Department of Functional Biology, Environmental Biogeochemistry and Raw Materials Group and IUBA, University of Oviedo, 33006 Oviedo, Asturias, Spain
| | - Christine Cagnon
- Universite de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - José Luis R Gallego
- INDUROT and Environmental Biogeochemistry and Raw Materials Group, Campus of Mieres, University of Oviedo, 33600 Mieres, Asturias, Spain
| | - Ana Isabel Pelaez
- Area of Microbiology, Department of Functional Biology, Environmental Biogeochemistry and Raw Materials Group and IUBA, University of Oviedo, 33006 Oviedo, Asturias, Spain.
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Diversity of Microbial Communities, PAHs, and Metals in Road and Leaf Dust of Functional Zones of Moscow and Murmansk. Microorganisms 2023; 11:microorganisms11020526. [PMID: 36838491 PMCID: PMC9965023 DOI: 10.3390/microorganisms11020526] [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: 01/11/2023] [Revised: 02/06/2023] [Accepted: 02/15/2023] [Indexed: 02/22/2023] Open
Abstract
The impact of geographical factors, functional zoning, and biotope type on the diversity of microbial communities and chemical components in the dust of urban ecosystems was studied. Comprehensive analyses of bacterial and fungal communities, polycyclic aromatic hydrocarbons (PAHs), and metals in road and leaf dust in three urban zones of Murmansk and Moscow with contrasting anthropogenic load were conducted. We found that the structure of bacterial communities affected the functional zoning of the city, biotope type, and geographical components. Fungal communities were instead impacted only by biotope type. Our findings revealed that the structure of fungal communities was mostly impacted by PAHs whereas bacterial communities were sensitive to metals. Bacteria of the genus Sphingomonas in road and leaf dust as indicators of the ecological state of the urban ecosystems were proposed.
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10
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Rojas-Solis D, Larsen J, Lindig-Cisneros R. Arsenic and mercury tolerant rhizobacteria that can improve phytoremediation of heavy metal contaminated soils. PeerJ 2023; 11:e14697. [PMID: 36650835 PMCID: PMC9840862 DOI: 10.7717/peerj.14697] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2022] [Accepted: 12/14/2022] [Indexed: 01/13/2023] Open
Abstract
Background Mining deposits often contain high levels of toxic elements such as mercury (Hg) and arsenic (As) representing strong environmental hazards. The purpose of this study was the isolation for plant growth promoting bacteria (PGPBs) that can improve phytoremediation of such mine waste deposits. Methods We isolated native soil bacteria from the rhizosphere of plants of mine waste deposits and agricultural land that was previously mine tailings from Tlalpujahua Michoacán, Mexico, and were identified by their fatty acid profile according to the MIDI Sherlock system. Plant growth promoting traits of all bacterial isolates were examined including production of 3-indoleacetic acid (IAA), siderophores, biofilm formation, and phosphate solubilization. Finally, the response of selected bacteria to mercury and arsenic was examined an in-vitro assay. Results A total 99 bacterial strains were isolated and 48 identified, representing 34 species belonging to 23 genera. Sixty six percent of the isolates produced IAA of which Pseudomonas fluorescens TL97 produced the most. Herbaspirillum huttiense TL36 performed best in terms of phosphate solubilization and production of siderophores. In terms of biofilm formation, Bacillus atrophaeus TL76 was the best. Discussion Most of the bacteria isolates showed high level of tolerance to the arsenic (as HAsNa2O4 and AsNaO2), whereas most isolates were susceptible to HgCl2. Three of the selected bacteria with PGP traits Herbispirillum huttiense TL36, Klebsiella oxytoca TL49 and Rhizobium radiobacter TL52 were also tolerant to high concentrations of mercury chloride, this might could be used for restoring or phytoremediating the adverse environmental conditions present in mine waste deposits.
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11
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Grey A, Costeira R, Lorenzo E, O’Kane S, McCaul MV, McCarthy T, Jordan SF, Allen CCR, Kelleher BP. Biogeochemical properties of blue carbon sediments influence the distribution and monomer composition of bacterial polyhydroxyalkanoates (PHA). BIOGEOCHEMISTRY 2023; 162:359-380. [PMID: 36873379 PMCID: PMC9971093 DOI: 10.1007/s10533-022-01008-5] [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: 02/08/2022] [Accepted: 11/25/2022] [Indexed: 06/18/2023]
Abstract
UNLABELLED Coastal wetlands are highly efficient 'blue carbon' sinks which contribute to mitigating climate change through the long-term removal of atmospheric CO2 and capture of carbon (C). Microorganisms are integral to C sequestration in blue carbon sediments and face a myriad of natural and anthropogenic pressures yet their adaptive responses are poorly understood. One such response in bacteria is the alteration of biomass lipids, specifically through the accumulation of polyhydroxyalkanoates (PHAs) and alteration of membrane phospholipid fatty acids (PLFA). PHAs are highly reduced bacterial storage polymers that increase bacterial fitness in changing environments. In this study, we investigated the distribution of microbial PHA, PLFA profiles, community structure and response to changes in sediment geochemistry along an elevation gradient from intertidal to vegetated supratidal sediments. We found highest PHA accumulation, monomer diversity and expression of lipid stress indices in elevated and vegetated sediments where C, nitrogen (N), PAH and heavy metals increased, and pH was significantly lower. This was accompanied by a reduction in bacterial diversity and a shift to higher abundances of microbial community members favouring complex C degradation. Results presented here describe a connection between bacterial PHA accumulation, membrane lipid adaptation, microbial community composition and polluted C rich sediments. GRAPHICAL ABSTRACT Geochemical, microbiological and polyhydroxyalkanoate (PHA) gradient in a blue carbon zone. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s10533-022-01008-5.
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Affiliation(s)
- Anthony Grey
- School of Chemical Sciences, Dublin City University, Glasnevin, Dublin 9, Ireland
| | - Ricardo Costeira
- The School of Biological Sciences, Queen’s University Belfast, Belfast, Northern Ireland
| | - Emmaline Lorenzo
- Department of Chemistry, University of Kansas, Lawrence, 66045 USA
| | - Sean O’Kane
- National Centre for Geocomputation, Maynooth University, Maynooth, Ireland
| | - Margaret V. McCaul
- Insight SFI Research Centre for Data Analytics, Dublin City University, Dublin 4, Ireland
| | - Tim McCarthy
- National Centre for Geocomputation, Maynooth University, Maynooth, Ireland
| | - Sean F. Jordan
- Insight SFI Research Centre for Data Analytics, Dublin City University, Dublin 4, Ireland
| | | | - Brian P. Kelleher
- School of Chemical Sciences, Dublin City University, Glasnevin, Dublin 9, Ireland
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12
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Campillo-Cora C, González-Feijoo R, Arias-Estévez M, Fernández-Calviño D. Do heavy metals affect bacterial communities more in small repeated applications or in a single large application? JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 325:116494. [PMID: 36308956 DOI: 10.1016/j.jenvman.2022.116494] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Revised: 10/04/2022] [Accepted: 10/08/2022] [Indexed: 06/16/2023]
Abstract
Heavy metals from anthropogenic sources accumulate slowly but steadily, leading to high metal concentration levels in soil. However, the effect of each heavy metal on soil bacterial communities is usually assessed in laboratories by a single application of individually spiked metals. We evaluated the differences between single individual application and repeated individual applications of Cr, Cu, Ni, Pb, and Zn on bacterial communities, through pollution-induced community tolerance (PICT), using bacterial growth as the endpoint (3H-leucine incorporation method). We found that PICT development was higher when soil was spiked in individual single application than individual repeated applications for Cu, Ni and Zn. In contrast, bacterial communities did not show different tolerance between singly or repeatedly when soil was spiked with Cr. In the case of Pb any increase of bacterial community tolerance to this metal was found despite high doses applied (up to 2000 mg kg-1). These results are relevant for the interpretation of the effects of heavy metals on soil microbes in order to avoid laboratory overestimations of the real effects of heavy metals on soil microbes.
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Affiliation(s)
- Claudia Campillo-Cora
- Universidade de Vigo, Departamento de Bioloxía Vexetal e Ciencia do Solo, Facultade de Ciencias, As Lagoas s/n, 32004, Ourense, Spain.
| | - Rocío González-Feijoo
- Universidade de Vigo, Departamento de Bioloxía Vexetal e Ciencia do Solo, Facultade de Ciencias, As Lagoas s/n, 32004, Ourense, Spain
| | - Manuel Arias-Estévez
- Universidade de Vigo, Departamento de Bioloxía Vexetal e Ciencia do Solo, Facultade de Ciencias, As Lagoas s/n, 32004, Ourense, Spain
| | - David Fernández-Calviño
- Universidade de Vigo, Departamento de Bioloxía Vexetal e Ciencia do Solo, Facultade de Ciencias, As Lagoas s/n, 32004, Ourense, Spain
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13
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Li D, Chen J, Zhang X, Shi W, Li J. Structural and functional characteristics of soil microbial communities in response to different ecological risk levels of heavy metals. Front Microbiol 2022; 13:1072389. [PMID: 36569064 PMCID: PMC9772559 DOI: 10.3389/fmicb.2022.1072389] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 11/18/2022] [Indexed: 12/13/2022] Open
Abstract
Objective The potential ecological risk index (RI) is the most commonly used method to assess heavy metals (HMs) contamination in soils. However, studies have focused on the response of soil microorganisms to different concentrations, whereas little is known about the responses of the microbial community structures and functions to HMs at different RI levels. Methods Here, we conducted soil microcosms with low (L), medium (M) and high (H) RI levels, depending on the Pb and Cd concentrations, were conducted. The original soil was used as the control (CK). High-throughput sequencing, qPCR, and Biolog plate approaches were applied to investigate the microbial community structures, abundance, diversity, metabolic capacity, functional genes, and community assembly processes. Result The abundance and alpha diversity indices for the bacteria at different RI levels were significantly lower than those of the CK. Meanwhile, the abundance and ACE index for the fungi increased significantly with RI levels. Acidobacteria, Basidiomycota and Planctomycetes were enriched as the RI level increased. Keystone taxa and co-occurrence pattern analysis showed that rare taxa play a vital role in the stability and function of the microbial community at different RI levels. Network analysis indicates that not only did the complexity and vulnerability of microbial community decrease as risk levels increased, but that the lowest number of keystone taxa was found at the H level. However, the microbial community showed enhanced intraspecific cooperation to adapt to the HMs stress. The Biolog plate data suggested that the average well color development (AWCD) reduced significantly with RI levels in bacteria, whereas the fungal AWCD was dramatically reduced only at the H level. The functional diversity indices and gene abundance for the microorganisms at the H level were significantly lower than those the CK. In addition, microbial community assembly tended to be more stochastic with an increase in RI levels. Conclusion Our results provide new insight into the ecological impacts of HMs on the soil microbiome at different risk levels, and will aid in future risk assessments for Pb and Cd contamination.
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Naz F, Hamayun M, Rauf M, Arif M, Afzal Khan S, Ud-Din J, Gul H, Hussain A, Iqbal A, Kim HY, Lee IJ. Molecular mechanism of Cu metal and drought stress resistance triggered by Porostereum spadiceum AGH786 in Solanum lycopersicum L. FRONTIERS IN PLANT SCIENCE 2022; 13:1029836. [PMID: 36438115 PMCID: PMC9685319 DOI: 10.3389/fpls.2022.1029836] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/27/2022] [Accepted: 10/06/2022] [Indexed: 06/16/2023]
Abstract
Rapid industrialization and global warming have threatened the plants with multiple abiotic stresses, such as heavy metals and drought stress. For crop cultivation, the conventional approach of cleaning the soils by excavation is very costly and not feasible for large scale. Establishing toxin-free and drought-resistant crops is a major challenge in the environment under natural and anthropogenic pressure. In the past decades, copper contamination of agricultural land has become an emerging concern. For dry land reclamation, several new strategies, including bioremediation (phytoremediation and microbial remediation), have been used. Owing to the potential of Cu hyperaccumulators, the current project aims to enhance the drought tolerance and the phytoremediation potential of Solanum lycopersicum L. with the inoculation of copper and 12% polyethylene glycol (PEG)-induced drought stress-tolerant endophytic fungus Porostereum spadiceum AGH786 under the combined stress of copper heavy metal and PEG-induced drought stress. When S. lycopersicum L. was watered with individual stress of copper (Cu) concentration (400 ppm) in the form of copper sulfate (CuSO4.5H2O), 12% PEG-induced drought stress and the combined stress of both negatively affected the growth attributes, hormonal, metabolic, and antioxidant potential, compared with control. However, the multistress-resistant AGH786 endophytic fungus ameliorated the multistress tolerance response in S. lycopersicum L. by positively affecting the growth attributes, hormonal, metabolic, and antioxidant potential, and by restricting the root-to-shoot translocation of Cu and inducing its sequestration in the root tissues of affected plants. AGH786-associated plants exhibited a reduction in the severity of copper (Cu) and drought stress, with higher levels of SlCOPT (Cu transporters) and SlMT (metallothionine) gene expressions in root and shoot tissues, indicating that AGH786 contributed to resistance to copper metal toxicity and drought stress in the host S. lycopersicum L.
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Affiliation(s)
- Falak Naz
- Department of Botany, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Muhammad Hamayun
- Department of Botany, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Mamoona Rauf
- Department of Botany, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Muhammad Arif
- Department of Biotechnology, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Sumera Afzal Khan
- Centre of Biotechnology and Microbiology, University of Peshawar, Peshawar, Pakistan
| | - Jalal Ud-Din
- Department of Biotechnology, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Humaira Gul
- Department of Botany, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Anwar Hussain
- Department of Botany, Abdul Wali Khan University Mardan, Mardan, Pakistan
| | - Amjad Iqbal
- Department of Food Technology, Abdul Wali Khan University, Mardan, Pakistan
| | - Ho-Youn Kim
- Smart Farm Research Center, Korea Institute of Science and Technology, Gangneung, South Korea
| | - In-Jung Lee
- Department of Applied Biosciences, Kyungpook National University, Daegu, South Korea
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15
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Signorini M, Midolo G, Cesco S, Mimmo T, Borruso L. A Matter of Metals: Copper but Not Cadmium Affects the Microbial Alpha-Diversity of Soils and Sediments - a Meta-analysis. MICROBIAL ECOLOGY 2022:10.1007/s00248-022-02115-4. [PMID: 36180621 DOI: 10.1007/s00248-022-02115-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Accepted: 09/16/2022] [Indexed: 06/16/2023]
Abstract
Heavy metal (HM) accumulation in soil affects plants and soil fauna, yet the effect on microbial alpha-diversity remains unclear, mainly due to the absence of dedicated research synthesis (e.g. meta-analysis). Here, we report the first meta-analysis of the response of soil microbial alpha-diversity to the experimental addition of cadmium (Cd) and copper (Cu). We considered studies conducted between 2013 and 2022 using DNA metabarcoding of bacterial and fungal communities to overcome limitations of other cultivation- and electrophoresis-based techniques. Fungi were discarded due to the limited study number (i.e. 6 studies). Bacterial studies resulted in 66 independent experiments reported in 32 primary papers from four continents. We found a negative dose-dependent response for Cu but not for Cd for bacterial alpha-diversity in the environments, only for Cu additions exceeding 29.6 mg kg-1 (first loss of - 0.06% at 30 mg kg-1). The maximal loss of bacterial alpha-diversity registered was 13.89% at 3837 mg kg-1. Our results first highlight that bacterial communities behave differently to soil pollution depending on the metal. Secondly, our study suggests that even extreme doses of Cu do not cause a dramatic loss in alpha-diversity, highlighting how the behaviour of bacterial communities diverges from soil macro-organisms.
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Affiliation(s)
- Marco Signorini
- Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, Bolzano, Italy.
| | - Gabriele Midolo
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
| | - Stefano Cesco
- Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, Bolzano, Italy
| | - Tanja Mimmo
- Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, Bolzano, Italy
- Competence Centre for Plant Health, Free University of Bolzano, Bolzano, Italy
| | - Luigimaria Borruso
- Faculty of Science and Technology, Free University of Bolzano, Piazza Università 5, Bolzano, Italy.
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16
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Tan H, Liu X, Yin S, Zhao C, Su L, Wang S, Khalid M, Setälä H, Hui N. Soil microbiota associated with immune-mediated disease was influenced by heavy metal stress in roadside soils of Shanghai. JOURNAL OF HAZARDOUS MATERIALS 2022; 438:129338. [PMID: 35785742 DOI: 10.1016/j.jhazmat.2022.129338] [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: 04/09/2022] [Revised: 05/29/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
Heavy metals (HMs) and total petroleum hydrocarbons (TPHs) in soils can be detrimental to both soil microorganisms and public health. However, the effects of HMs and TPHs on microbes as well as the consequent microbial-derived health risk remains unclear in soils by local roads where citizens are clearly accessible to traffic-derived pollutants. Herein, we sampled 84 roadside soils throughout Shanghai. We measured the levels of soil edaphic factors, 6 HMs, and alkane TPHs. We further focused on the responses of bacterial and fungal communities assessed via sequencing and network analysis. Results showed that all soil HMs exceeded background levels of Shanghai soil, while the levels of TPHs are comparable to unpolluted sites. Bacterial network nodes and links decreased sharply under HM stress whereas that of fungal networks remained unchanged. The differential pattern was attributed to the asynchronous response of key classes that fungal key classes were more resistant to HMs than bacteria. In addition, 66.8 % of fungal genera associated with immune-mediated disease increased with increased HM stress for its HM tolerance. Together our findings indicate that despite the relatively stable fungal community in response to environmental stresses, the elevation of harmful fungi likely pose threats to health of urban dwellers.
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Affiliation(s)
- Haoxin Tan
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Xinxin Liu
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Instrumental analysis center, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Shan Yin
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Chang Zhao
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Lantian Su
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Song Wang
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Muhammad Khalid
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Heikki Setälä
- Faculty of Biological and Environmental Sciences, University of Helsinki, FIN-15140 Lahti, Finland.
| | - Nan Hui
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Faculty of Biological and Environmental Sciences, University of Helsinki, FIN-15140 Lahti, Finland.
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17
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The Effect of Heavy Metals on Microbial Communities in Industrial Soil in the Area of Piekary Śląskie and Bukowno (Poland). MICROBIOLOGY RESEARCH 2022. [DOI: 10.3390/microbiolres13030045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The aim of this study was to determine the activity and structure of microbial communities in soils contaminated with heavy metals (HMs). To achieve this goal, soil samples were taken from two contaminated sites (i.e., Piekary Śląskie and Bukowno) in Poland. A wide range of methods were applied, including: total and metal-tolerant culturable bacteria enumeration; microbial community structure analysis using the phospholipid fatty acid method (PLFA); denaturing gradient gel electrophoresis (PCR-DGGE); and metabolic activity using BIOLOG and EcoPlateTM. Our studies showed that HMs negatively affected microbial community structure and activity in polluted soils. Apart from the contamination with HMs, other soil parameters like soil pH and water also impacted microbial community structure and growth. Metal-tolerant bacterial strains were isolated, identified and tested for presence of genes encoding HM tolerance using the polymerase chain reaction (PCR) methodology. Contamination with HMs in the tested areas was found to lead to development of metallotolerant bacteria with multiple tolerances toward Zn, Ni, Cd and Cu. Different genes (e.g., czcA, cadA and nccA) encoding HM efflux pumps were detected within isolated bacteria. Culturable bacteria isolated belonged to Proteobacteria, Actinobacteria and Bacteroidetes genera. Among non-culturable bacteria in soil samples, a significant fraction of the total bacteria and phyla, such as Gemmatimonadetes and Acidobacteria, were found to be present in all studied soils. In addition, bacteria of the Chloroflexi genus was present in soil samples from Piekary Śląskie, while bacteria of the Firmicutes genus were found in soil samples from Bukowno.
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18
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Yuan Q, Wang P, Wang X, Hu B, Liu S, Ma J. Abundant microbial communities act as more sensitive bio-indicators for ecological evaluation of copper mine contamination than rare taxa in river sediments. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 305:119310. [PMID: 35430312 DOI: 10.1016/j.envpol.2022.119310] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 04/09/2022] [Accepted: 04/12/2022] [Indexed: 06/14/2023]
Abstract
Bacterial and fungal communities have been widely applied as bio-indicators for ecological evaluation of copper (Cu) mine pollution in river sediments. However, the response pattern of their abundant and rare sub-communities is still unknown, limiting the further development of biological diagnostics. Here, the alpha-diversity, community composition, environmental contribution and co-occurrence network of total, abundant and rare taxa for bacteria and fungi in the Jiaopingdu Cu Mine wastewater treatment plant (WWTP) were investigated through high-throughput sequencing. The results revealed different responses of microbial alpha-diversity for abundant and rare sub-communities. The abundant taxa were ubiquitous in all sediments, while rare taxa exhibited increases of species richness in polluted areas because of heterochthonous inputs of WWTP drainage. Nevertheless, the variations of community composition were consistent for bacterial and fungal abundant and rare taxa, all of which showed significant dissimilarity between control and polluted areas. Distance-decay relationship and canonical correlation analysis indicated that abundant taxa assemblies (rbacteria = -0.924, rfungi = -0.684) were more strongly driven by environmental changes than rare ones (rbacteria = -0.626, rfungi = -0.349), because abundant microbes had higher proportions of significant variations in abundance. Co-occurrence networks revealed more keystone species with high node degree and centrality among abundant taxa compared with rare ones. Moreover, bacterial abundant and rare taxa were more sensitive to Cu mine pollution than relevant fungal taxa owing to different Cu tolerance. In conclusion, among all microbial sub-communities, abundant bacteria had the highest environmental sensitivity, suggesting their important application in biological diagnosis of Cu mine pollution. Accordingly, the abundant taxa could act as "key reservoir" for future selection of specific indicator species, for example Thiobacillus, while rare taxa no longer need excessive in-depth analysis, which would greatly improve microbial diagnosis efficiency.
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Affiliation(s)
- Qiusheng Yuan
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China
| | - Peifang Wang
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China.
| | - Xun Wang
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China
| | - Bin Hu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China
| | - Sheng Liu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China
| | - Jingjie Ma
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Nanjing, Jiangsu, 210098, PR China
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19
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Effects of Mercury Contamination on Microbial Diversity of Different Kinds of Soil. Microorganisms 2022; 10:microorganisms10050977. [PMID: 35630421 PMCID: PMC9144551 DOI: 10.3390/microorganisms10050977] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2022] [Revised: 04/29/2022] [Accepted: 05/04/2022] [Indexed: 11/17/2022] Open
Abstract
Soil microorganisms promote the recovery of contaminated soil by influencing the cyclic transformation of various substances. In this study, we investigated the impact of mercury pollution on the structure, composition, and main populations of soil microbial communities using a high-throughput sequencing method and observed that mercury pollution significantly influenced the diversity, structure, and distribution pattern of microbial communities. Furthermore, during mercury pollution, the Shannon and Chao indices decreased for the bacterial communities and increased for the fungal communities. Mercury pollution mainly reduced the relative abundances of Proteobacteria (16.2−30.6%), Actinomycetes (24.7−40.8%), and other dominant bacterial phyla. The relative abundance of Ascomycota decreased by 17.4% and 16.7% in alkaline and neutral soils, respectively, whereas the relative abundance of unclassified_k_Fungi increased by 26.1% and 28.6%, respectively. In acidic soil, Ascomycota increased by 106.3% and unclassified_k_Fungi decreased by 71.2%. The results of redundancy and correlation analyses suggested that soil microbial diversity was significantly correlated with soil properties such as pH, cation exchange capacity, soil organic carbon, and total nitrogen (p < 0.05) under different treatments. Our findings highlight the impact of Hg pollution on soil microbial communities, thereby providing a theoretical foundation for the bioremediation of soil Hg pollution.
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20
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Gajewska J, Floryszak-Wieczorek J, Sobieszczuk-Nowicka E, Mattoo A, Arasimowicz-Jelonek M. Fungal and oomycete pathogens and heavy metals: an inglorious couple in the environment. IMA Fungus 2022; 13:6. [PMID: 35468869 PMCID: PMC9036806 DOI: 10.1186/s43008-022-00092-4] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2021] [Accepted: 04/07/2022] [Indexed: 01/30/2023] Open
Abstract
Heavy metal (HM) contamination of the environment is a major problem worldwide. The rate of global deposition of HMs in soil has dramatically increased over the past two centuries and there of facilitated their rapid accumulation also in living systems. Although the effects of HMs on plants, animals and humans have been extensively studied, yet little is known about their effects on the (patho)biology of the microorganisms belonging to a unique group of filamentous eukaryotic pathogens, i.e., fungi and oomycetes. Much of the literature concerning mainly model species has revealed that HM stress affects their hyphal growth, morphology, and sporulation. Toxicity at cellular level leads to disturbance of redox homeostasis manifested by the formation of nitro-oxidative intermediates and to the induction of antioxidant machinery. Despite such adverse effects, published data is indicative of the fact that fungal and oomycete pathogens have a relatively high tolerance to HMs in comparison to other groups of microbes such as bacteria. Likely, these pathogens may harbor a network of detoxification mechanisms that ensure their survival in a highly HM-polluted (micro)habitat. Such a network may include extracellular HMs immobilization, biosorption to cell wall, and/or their intracellular sequestration to proteins or other ligands. HMs may also induce a hormesis-like phenomenon allowing the pathogens to maintain or even increase fitness against chemical challenges. Different scenarios linking HMs stress and modification of the microorganisms pathogenicity are disscused in this review.
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21
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Henagamage AP, Peries CM, Seneviratne G. Fungal-bacterial biofilm mediated heavy metal rhizo-remediation. World J Microbiol Biotechnol 2022; 38:85. [PMID: 35380298 DOI: 10.1007/s11274-022-03267-8] [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: 06/09/2021] [Accepted: 03/21/2022] [Indexed: 12/01/2022]
Abstract
Heavy metal pollution due to excessive use of chemical fertilizers (CF) causes major damage to the environment. Microbial biofilms, closely associated with the rhizosphere can remediate heavy metal-contaminated soil by reducing plant toxicity. Thus, this study was undertaken to examine the remedial effects of microbial biofilms against contaminated heavy metals. Fungi and bacteria isolated from soil were screened for their tolerance against Cd2+, Pb2+, and Zn2+. Three bacterial and two fungal isolates were selected upon the tolerance index (TI) percentage. Fungal-bacterial biofilms (FBBs) were developed with the most tolerant isolates and were further screened for their bioremediation capabilities against heavy metals. The best biofilm was evaluated for its rhizoremediation capability with different CF combinations using a pot experiment conducted under greenhouse conditions with potatoes. Significantly (P < 0.05), the highest metal removal percentage was observed in Trichoderma harzianum and Bacillus subtilis biofilm under in situ conditions. When compared to the 100% recommended CF, the biofilm with 50% of the recommended CF (50CB) significantly (P < 0.05) reduced soil available Pb2+ by 77%, Cd2+ by 78% and Zn2+ by 62%. In comparison to initial soil, it was 73%, 76%, and 57% lower of Pb2+, Cd2+, and Zn2+, respectively. In addition, 50CB treatment significantly (P < 0.05) reduced the metal penetration into the tuber tissues in comparison with 100 C. Thus, the function of the developed FBB with T. harzianum-B. subtilis can be used as a potential solution to remediate soil polluted with Pb2+ Cd2+ and Zn2+ metal contaminants.
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Affiliation(s)
- A P Henagamage
- Department of Science and Technology, Faculty of Applied Sciences, Uva Wellassa University, Passara Road, Badulla, Sri Lanka.
| | - C M Peries
- Department of Science and Technology, Faculty of Applied Sciences, Uva Wellassa University, Passara Road, Badulla, Sri Lanka
| | - G Seneviratne
- National Institute of Fundamental Studies, Hantana Road, Kandy, Sri Lanka
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22
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Luo Y, Pang J, Li C, Sun J, Xu Q, Ye J, Wu H, Wan Y, Shi J. Long-term and high-bioavailable potentially toxic elements (PTEs) strongly influence the microbiota in electroplating sites. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 814:151933. [PMID: 34838915 DOI: 10.1016/j.scitotenv.2021.151933] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 11/01/2021] [Accepted: 11/20/2021] [Indexed: 06/13/2023]
Abstract
Multiple potentially toxic elements (PTEs) wastes are produced in the process of electroplating, which pollute the surrounding soils. However, the priority pollutants and critical risk factors in electroplating sites are still unclear. Hence, a typical demolished electroplating site (operation for 31 years) in the Yangtze River Delta was investigated. Results showed that the soil was severely polluted by Cr(VI) (1711.3 mg kg-1), Ni (6754.0 mg kg-1) and Pb (2784.4 mg kg-1). The spatial distribution of soil PTEs performed by ArcGIS illustrated that the soil pollution varied with plating workshops. Hard Cr electroplating workshops (HCE), decorative Cr electroplating workshops (DCE) and sludge storage station (SS) were the hot spots in the site. Besides, the toxicity characteristic leaching procedure (TCLP) - extractable Cr and Ni contents in different workshops were significantly related (P < 0.05) to their bioavailable fractions (exchangeable fraction (F1) + bound to carbonate fraction (F2)), which pose potential risk to humans. Although the soil total Pb concentration was high, its mobility was very low (<0.007%). Moreover, the soil microbial community dynamics under the stress of long term and high contents of PTEs were further revealed. The soil microbiota was significantly disturbed by long term and high concentration of PTEs. A bit of bacteria (Caulobacter) and fungi (Cladosporium and Monocillium) showed tolerance potential to multiple metals. Furthermore, the canonical correspondence analysis (CCA) showed that the bioavailable fractions (F1 + F2) of Cr and Ni were the most critical environmental variables affecting microbiota. Therefore, remediation strategies are required urgently to reduce the bioavailability of soil Cr and Ni. The results of this study provide an overview of the pollution distribution and microbial dynamics of a typical plating site, laying a foundation for ecological remediation of electroplating sites in Yangtze River Delta of China.
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Affiliation(s)
- Yating Luo
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China; MOE Key laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Jingli Pang
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Chunhui Li
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Jiacong Sun
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Qiao Xu
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China; Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China
| | - Jien Ye
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Hanxin Wu
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Yuanyan Wan
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China
| | - Jiyan Shi
- Department of Environmental Engineering, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China; MOE Key laboratory of Environmental Remediation and Ecological Health, College of Environmental and Resource Science, Zhejiang University, Hangzhou 310058, China.
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Yang M, Liu Y, Liao Y, Tang C, Wen Z, Fazal A, Yang R, Qi J, Hong Z, Li Y, Yang Y. Excess copper promotes catabolic activity of gram-positive bacteria and resistance of gram-negative bacteria but inhibits fungal community in soil. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:22602-22612. [PMID: 34792767 DOI: 10.1007/s11356-021-17510-6] [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: 07/28/2021] [Accepted: 11/09/2021] [Indexed: 06/13/2023]
Abstract
The extensive use of copper fungicides has resulted in significant non-target effects on soil microbial communities. However, the documented effects are often variable and contradictory, depending on the methods used to assess them. In this study, we examined the effects of copper accumulation in surface soils on microbial catabolic activity, active biomass and composition, and sensitive bacterial species. The community-level catabolic profiles (CLCPs) showed that both normal (50 mg CuSO4 kg-1 soil) and high dosages (tenfold rate) of CuSO4 significantly increased the catabolic diversity of gram-positive bacteria, while the high dosage increased the overall catabolic activity of gram-negative bacteria. The phospholipid fatty acid (PLFA) analysis showed that the high dosage reduced the biomass of gram-positive bacteria by 27% but did not affect that of gram-negative bacteria. In comparison, the normal and high dosages decreased the fungal biomass by 34% and 58%, respectively. Furthermore, 16S rRNA-denaturing gradient gel electrophoresis (DGGE) fingerprint revealed that more than two-thirds of identified bands belonged to gram-negative bacteria. Some Cu-resistant gram-negative bacterial genera, such as Actinobacterium, Pseudomonas, and Proteobacterium, were detected in the soil to which the high dosage of CuSO4 had been applied. In conclusion, an excess application of CuSO4 increased the catabolic diversity of gram-positive bacteria and induced resistance in gram-negative bacteria, whereas the active fungal community displayed a dosage-dependent response to CuSO4 and can thus be used as a sensitive indicator of copper contamination.
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Affiliation(s)
- Minkai Yang
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Yehao Liu
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Yonghui Liao
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Caixian Tang
- Department of Animal, Plant and Soil Sciences, La Trobe University, Bundoora, VIC, 3086, Australia
| | - Zhongling Wen
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Aliya Fazal
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Rongwu Yang
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Jinliang Qi
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Zhi Hong
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
| | - Yongchun Li
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
- State Key Laboratory of Subtropical Silviculture, College of Environmental and Resource Sciences, Zhejiang A&F University, Hangzhou, 311300, China.
| | - Yonghua Yang
- Institute of Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
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24
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Klimek B, Poliwka-Modliborek H, Grześ IM. Ant nests as a microbial hot spots in a long-term heavy metal-contaminated soils. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:10848-10857. [PMID: 34528210 PMCID: PMC8783854 DOI: 10.1007/s11356-021-16384-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Accepted: 09/02/2021] [Indexed: 06/13/2023]
Abstract
Interactions between soil fauna and soil microorganisms are not fully recognized, especially in extreme environments, such as long-term metal-polluted soils. The purpose of the study was to assess how the presence of Lasius niger ants affected soil microbial characteristics in a long-term metal-polluted area (Upper Silesia in Poland). Paired soil samples were taken from bulk soil and from ant nests and analysed for a range of soil physicochemical properties, including metal content (zinc, cadmium, and lead). Microbial analysis included soil microbial activity (soil respiration rate), microbial biomass (substrate-induced respiration rate), and bacteria catabolic properties (Biolog® ECO plates). Soil collected from ant nests was drier and was characterized by a lower content of organic matter, carbon and nitrogen contents, and also lower metal content than bulk soil. Soil microbial respiration rate was positively related to soil pH (p = 0.01) and negatively to water-soluble metal content, integrated into TIws index (p = 0.01). Soil microbial biomass was negatively related to TIws index (p = 0.04). Neither soil microbial activity and biomass nor bacteria catabolic activity and diversity indices differed between bulk soil and ant nests. Taken together, ant activity reduced soil contamination by metals in a microscale which support microbial community activity and biomass but did not affect Biolog® culturable bacteria.
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Affiliation(s)
- Beata Klimek
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, Gronostajowa 7, 30-387, Kraków, Poland.
| | - Hanna Poliwka-Modliborek
- Institute of Environmental Sciences, Faculty of Biology, Jagiellonian University, Gronostajowa 7, 30-387, Kraków, Poland
| | - Irena M Grześ
- Department of Zoology and Animal Welfare, University of Agriculture in Krakow, Mickiewicza 21, 31-120, Kraków, Poland
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25
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Phylloplane Biodiversity and Activity in the City at Different Distances from the Traffic Pollution Source. PLANTS 2022; 11:plants11030402. [PMID: 35161383 PMCID: PMC8839900 DOI: 10.3390/plants11030402] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Revised: 01/24/2022] [Accepted: 01/27/2022] [Indexed: 11/17/2022]
Abstract
The phylloplane is an integrated part of green infrastructure which interacts with plant health. Taxonomic characterization of the phylloplane with the aim to link it to ecosystem functioning under anthropogenic pressure is not sufficient because only active microorganisms drive biochemical processes. Activity of the phylloplane remains largely overlooked. We aimed to study the interactions among the biological characteristics of the phylloplane: taxonomic diversity, functional diversity and activity, and the pollution grade. Leaves of Betula pendula were sampled in Moscow at increasing distances from the road. For determination of phylloplane activity and functional diversity, a MicroResp tool was utilized. Taxonomic diversity of the phylloplane was assessed with a combination of microorganism cultivation and molecular techniques. Increase of anthropogenic load resulted in higher microbial respiration and lower DNA amount, which could be viewed as relative inefficiency of phylloplane functioning in comparison to less contaminated areas. Taxonomic diversity declined with road vicinity, similar to the functional diversity pattern. The content of Zn in leaf dust better explained the variation in phylloplane activity and the amount of DNA. Functional diversity was linked to variation in nutrient content. The fraction of pathogenic fungi of the phylloplane was not correlated with any of the studied elements, while it was significantly high at the roadsides. The bacterial classes Gammaproteobacteria and Cytophagia, as well as the Dothideomycetes class of fungi, are exposed to the maximal effect of distance from the highway. This study demonstrated the sensitivity of the phylloplane to road vicinity, which combines the effects of contaminants (mainly Zn according to this study) and potential stressful air microclimatic conditions (e.g., low relative air humidity, high temperature, and UV level). Microbial activity and taxonomic diversity of the phylloplane could be considered as an additional tool for bioindication.
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26
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Biswal D. Nematodes as Ghosts of Land Use Past: Elucidating the Roles of Soil Nematode Community Studies as Indicators of Soil Health and Land Management Practices. Appl Biochem Biotechnol 2022; 194:2357-2417. [PMID: 35037168 DOI: 10.1007/s12010-022-03808-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/30/2021] [Indexed: 11/30/2022]
Abstract
Soil health is a matter of growing concern because of its degradation due to unsustainable anthropogenic activities over the last few decades. It is maintained by interactions among the components of the soil food web commonly concentrated in the vicinity of the plant roots, called the rhizosphere. The soil food web is dominated by nematodes. They occupy various trophic positions because of their diverse feeding habits. The free-living forms are mainly dependent on soil bacteria and fungi for their nutrition, while the parasitic forms feed on plant roots. The population of these two groups is regulated by the activities of predatory nematodes which can be carnivorous or omnivorous. The soil nematodes thereby partake responsibilities in nutrient cycling, mineralization and decomposition pathways which, in turn, affects the aboveground productivity. This intricately connected food web structure is vulnerable to disturbances like increased soil salinity, acidity, nitrogen enrichment, tillage, crop rotations, fertilizers, pesticides, soil amendment techniques and heavy metal pollution. The effects are reflected by alterations in the abundance and diversity of soil nematodes belonging to various trophic groups. These alterations have been formulated into measurable indices like maturity index (MI), structure index (SI), enrichment index (EI) and channel index (CI). The faunal profile and metabolic footprints of soil nematodes are latest developments in the field of nematode community analyses. Though these indices cannot replace the conventional soil ecotoxicological assays, they can give added information about soil biology which can be utilized to design sustainable land use practices.
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Affiliation(s)
- Debraj Biswal
- Department of Zoology, Government General Degree College at Mangalkote, Burdwan, West Bengal, 713132, India.
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27
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Kushwaha P, Neilson JW, Maier RM, Babst-Kostecka A. Soil microbial community and abiotic soil properties influence Zn and Cd hyperaccumulation differently in Arabidopsis halleri. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 803:150006. [PMID: 34487902 PMCID: PMC8595848 DOI: 10.1016/j.scitotenv.2021.150006] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Revised: 08/23/2021] [Accepted: 08/25/2021] [Indexed: 05/14/2023]
Abstract
Soil contamination with trace metal(loid) elements (TME) is a global concern. This has focused interest on TME-tolerant plants, some of which can hyperaccumulate extraordinary amounts of TME into above-ground tissues, for potential treatment of these soils. However, intra-species variability in TME hyperaccumulation is not yet sufficiently understood to fully harness this potential. Particularly, little is known about the rhizosphere microbial communities associated with hyperaccumulating plants and whether or not they facilitate TME uptake. The aim of this study is to characterize the diversity and structure of Arabidopsis halleri rhizosphere-influenced and background (i.e., non-Arabidopsis) soil microbial communities in four plant populations with contrasting Zn and Cd hyperaccumulation traits, two each from contaminated and uncontaminated sites. Microbial community properties were assessed along with geographic location, climate, abiotic soil properties, and plant parameters to explain variation in Zn and Cd hyperaccumulation. Site type (TME-contaminated vs. uncontaminated) and location explained 44% of bacterial/archaeal and 28% of fungal community variability. A linear discriminant effect size (LEfSe) analysis identified a greater number of taxa defining rhizosphere microbial communities than associated background soils. Further, in TME-contaminated soils, the number of rhizosphere-defining taxa was 6-fold greater than in the background soils. In contrast, the corresponding ratio for uncontaminated sites, was 3 and 1.6 for bacteria/archaea and fungi, respectively. The variables analyzed explained 71% and 76% of the variance in Zn and Cd hyperaccumulation, respectively; however, each hyperaccumulation pattern was associated with different variables. A. halleri rhizosphere fungal richness and diversity associated most strongly with Zn hyperaccumulation, whereas soil Cd and Zn bioavailability had the strongest associations with Cd hyperaccumulation. Our results indicate strong associations between A. halleri TME hyperaccumulation and rhizosphere microbial community properties, a finding that needs to be further explored to optimize phytoremediation technology that is based on hyperaccumulation.
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Affiliation(s)
- Priyanka Kushwaha
- Department of Environmental Science, The University of Arizona, Tucson, AZ 85721, USA
| | - Julia W Neilson
- Department of Environmental Science, The University of Arizona, Tucson, AZ 85721, USA
| | - Raina M Maier
- Department of Environmental Science, The University of Arizona, Tucson, AZ 85721, USA
| | - Alicja Babst-Kostecka
- Department of Environmental Science, The University of Arizona, Tucson, AZ 85721, USA; W. Szafer Institute of Botany, Polish Academy of Sciences, Department of Ecology, Lubicz 46, 31-512 Krakow, Poland.
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28
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Rani L, Srivastav AL, Kaushal J. Bioremediation: An effective approach of mercury removal from the aqueous solutions. CHEMOSPHERE 2021; 280:130654. [PMID: 34162069 DOI: 10.1016/j.chemosphere.2021.130654] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2020] [Revised: 04/03/2021] [Accepted: 04/21/2021] [Indexed: 06/13/2023]
Abstract
Mercury (Hg(II)) is the 16th rarest element present in the earth's crust. Due to rapid industrialization and urban expansions, the mercury concentration has been elevated in the environment. Hg(II) contamination in the aqueous environment has become a great challenge for human beings. The main source of Hg(II) in the aqueous phase is untreated effluent industries (such as the paper industry). Hg(II) is non-biodegradable in nature and even its trace amount in an aqueous environment can pose chronic threats among the humans (damage to the central nervous system, respiratory system, and cardiovascular system, mutation of DNA), animals, and aquatic creatures. Therefore, the removal of mercury from aqueous solutions is an urgent need of the modern era. The conventional techniques such as ion exchange, precipitation, membrane filtrations are costly and also generate byproducts in the environment. Bioremediation is a sustainable, environmentally sound, and cost-effective technique to remove Hg(II) from the aqueous solutions. In this process, naturally occurring microorganisms are utilized to remove the Hg(II) from the aqueous solutions. Lentinus edodes, U. lactuca, and Typha domingensis are found to have great potential to remove mercury from water ranged from ~100 mg g-1 to 337 mg g-1.
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Affiliation(s)
- Lata Rani
- Centre for Water Sciences, Chitkara University Institute of Engineering & Technology, Chitkara University, Punjab, 140 417, India; School of Basic Sciences, Chitkara University, Himachal Pradesh, 174 103, India
| | - Arun Lal Srivastav
- Chitkara University School of Engineering and Technology, Chitkara University, Himachal Pradesh, 174 103, India.
| | - Jyotsna Kaushal
- Centre for Water Sciences, Chitkara University Institute of Engineering & Technology, Chitkara University, Punjab, 140 417, India
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29
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Sun T, Xu Y, Sun Y, Wang L, Liang X, Zheng S. Cd immobilization and soil quality under Fe-modified biochar in weakly alkaline soil. CHEMOSPHERE 2021; 280:130606. [PMID: 33964760 DOI: 10.1016/j.chemosphere.2021.130606] [Citation(s) in RCA: 34] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 04/09/2021] [Accepted: 04/14/2021] [Indexed: 05/15/2023]
Abstract
Cost-effective and environment-friendly implementation techniques are critical to the success of remediation in large-scale cadmium (Cd) contaminated agricultural soil. Field experiments were conducted to investigate the effect of Fe-modified biochar on Cd bioavailability in soils and uptake by maize (Zea mays L.), soil aggregate distribution and stability, and microbial community composition in weakly alkaline Cd-contaminated soil. Results showed that Fe-modified biochar optimized the structure and stability of soil aggregates. Moreover, the content of soil organic carbon increased by 6.59%-20.36% when compared with the control groups. However, DTPA-Cd concentration under the treatment of Fe-modified biochar was suffered by 37.74%-41.65% reduction in contrast with CK, and the significant decrease (P < 0.05) was obtained at 0.5% Fe-modified biochar. Moreover, sequential extraction procedures showed that the acid soluble and reducible states of Cd was converted into oxidizable and residual form. The addition of Fe-modified biochar inhibited Cd accumulation in maize, being 41.31%-76.64% (Zhengdan 958), 38.19%-70.95% (Liyu 86) and 52.30%-59.95% (Sanbei 218) reduction, respectively, in contrast with CK. The activity of catalase, urease and alkaline phosphatase in soil increased gradually with the addition of Fe-modified biochar. The enhancement in the number of soil bacterial OTUs and the values of Shannon, Chao1, ACE index indicated that Fe-modified biochar promoted the richness and diversity of bacterial communities. Therefore, the improvements of soil environment and biological quality indicated that Fe-modified biochar should be an alternative agent on remediation of Cd-contaminated soils.
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Affiliation(s)
- Tong Sun
- Key Laboratory of Original Agro-Environmental Pollution Prevention and Control, Ministry of Agriculture, Ministry of Agriculture and Rural Affairs (MARA), Tianjin, 300191, China; Tianjin Key Laboratory of Agro-Environment and Agro-Product Safety, Agro-Environmental Protection Institute, MARA, Tianjin, 300191, China
| | - Yingming Xu
- Key Laboratory of Original Agro-Environmental Pollution Prevention and Control, Ministry of Agriculture, Ministry of Agriculture and Rural Affairs (MARA), Tianjin, 300191, China; Tianjin Key Laboratory of Agro-Environment and Agro-Product Safety, Agro-Environmental Protection Institute, MARA, Tianjin, 300191, China
| | - Yuebing Sun
- Key Laboratory of Original Agro-Environmental Pollution Prevention and Control, Ministry of Agriculture, Ministry of Agriculture and Rural Affairs (MARA), Tianjin, 300191, China; Tianjin Key Laboratory of Agro-Environment and Agro-Product Safety, Agro-Environmental Protection Institute, MARA, Tianjin, 300191, China.
| | - Lin Wang
- Key Laboratory of Original Agro-Environmental Pollution Prevention and Control, Ministry of Agriculture, Ministry of Agriculture and Rural Affairs (MARA), Tianjin, 300191, China; Tianjin Key Laboratory of Agro-Environment and Agro-Product Safety, Agro-Environmental Protection Institute, MARA, Tianjin, 300191, China
| | - Xuefeng Liang
- Key Laboratory of Original Agro-Environmental Pollution Prevention and Control, Ministry of Agriculture, Ministry of Agriculture and Rural Affairs (MARA), Tianjin, 300191, China; Tianjin Key Laboratory of Agro-Environment and Agro-Product Safety, Agro-Environmental Protection Institute, MARA, Tianjin, 300191, China
| | - Shunan Zheng
- Rural Energy & Environment Agency, MARA, Beijing, 100125, China.
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30
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Molnár M, Hoffer A, Krisch J, Földényi R, Rauch R, Horváth O. Biodegradation of two persistent aromatic compounds by using oil shale. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART. B, PESTICIDES, FOOD CONTAMINANTS, AND AGRICULTURAL WASTES 2021; 56:909-924. [PMID: 34543168 DOI: 10.1080/03601234.2021.1976543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Low-cost oil shale was investigated as a biodegradation promoter material, in order to exploit its potential for more widespread and efficient usage in the elimination of pollution. Degradation of two model pollutants, 4-nitrophenol and phenol, was examined in the presence of oil shale in a batch system. In order to investigate the role of the natural microflora of the oil shale in degradation, sodium azide was added to inhibit microbial growth. The effect of metal ions was also investigated. In the sodium azide-free solutions the model pollutants were completely degraded up to 2000 µmol/L concentration in a dose-dependent way, while the addition of sodium azide delayed greatly but did not stop the degradation. Manganese(II) ions increased the rate of the degradation of 4-nitrophenol, and given quantities of iron(II), manganese(II) or zinc(II) ions were also effective in degradation of phenol. Our results suggest that oil shale is not only an adsorbent but has an active role in the degradation of pollutants by its natural microflora. Utilizing these features of oil shale, it is a suitable candidate as an ameliorating agent, which can also be used in industrial size.
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Affiliation(s)
- Miklós Molnár
- Soós Ernő Water Technology Research and Development Center, University of Pannonia, Veszprém, Hungary
| | - András Hoffer
- MTA-PE Air Chemistry Research Group, University of Pannonia, Veszprém, Hungary
| | - Judit Krisch
- Institute of Food Engineering, University of Szeged, Szeged, Hungary
| | - Rita Földényi
- Soós Ernő Water Technology Research and Development Center, University of Pannonia, Veszprém, Hungary
| | - Renáta Rauch
- Research Institute of Bio-Nanotechnology and Chemical Engineering, University of Pannonia, Veszprém, Hungary
| | - Ottó Horváth
- Department of General and Inorganic Chemistry, Center for Natural Sciences, University of Pannonia, Veszprém, Hungary
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31
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Liu W, Liu L, Yang X, Deng M, Wang Z, Wang P, Yang S, Li P, Peng Z, Yang L, Jiang L. Long-term nitrogen input alters plant and soil bacterial, but not fungal beta diversity in a semiarid grassland. GLOBAL CHANGE BIOLOGY 2021; 27:3939-3950. [PMID: 33993594 DOI: 10.1111/gcb.15681] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Accepted: 05/06/2021] [Indexed: 06/12/2023]
Abstract
Anthropogenic nitrogen (N) input is known to alter plant and microbial α-diversity, but how N enrichment influences β-diversity of plant and microbial communities remains poorly understood. Using a long-term multilevel N addition experiment in a temperate steppe, we show that plant, soil bacterial and fungal communities exhibited different responses in their β-diversity to N input. Plant β-diversity decreased linearly as N addition increased, as a result of increased directional environmental filtering, where soil environmental properties largely explained variation in plant β-diversity. Soil bacterial β-diversity first increased then decreased with increasing N input, which was best explained by corresponding changes in soil environmental heterogeneity. Soil fungal β-diversity, however, remained largely unchanged across the N gradient, with plant β-diversity, soil environmental properties, and heterogeneity together explaining an insignificant fraction of variation in fungal β-diversity, reflecting the importance of stochastic community assembly. Our study demonstrates the divergent effect of N enrichment on the assembly of plant, soil bacterial and fungal communities, emphasizing the need to examine closely associated fundamental components (i.e., plants and microorganisms) of ecosystems to gain a more complete understanding of ecological consequences of anthropogenic N enrichment.
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Affiliation(s)
- Weixing Liu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
| | - Lingli Liu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Xian Yang
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
| | - Meifeng Deng
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Zhou Wang
- University of Chinese Academy of Sciences, Beijing, China
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, Provincial Key Laboratory of Applied Botany, Chinese Academy of Sciences, South China Botanical Garden, Guangzhou, China
| | - Pandeng Wang
- State Key Laboratory of Biocontrol, School of Ecology, Sun Yat-sen University, Guangzhou, China
| | - Sen Yang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Ping Li
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Ziyang Peng
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Lu Yang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Lin Jiang
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
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32
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The Effect of Clarithromycin Toxicity on the Growth of Bacterial Communities in Agricultural Soils. Processes (Basel) 2021. [DOI: 10.3390/pr9081303] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
The presence of antibiotics in different environmental matrices is a growing concern. The introduction of antibiotics into the soil is mainly due to sewage treatment plants. Once in the soil, antibiotics may become toxic to microbial communities and, as a consequence, can pose a risk to the environment and human health. This study evaluates the potential toxicity of the antibiotic clarithromycin (CLA) in relation to the bacterial community of 12 soils with different characteristics. Bacterial community growth was evaluated in soils spiked in the laboratory with different concentrations of CLA after 1, 8, and 42 incubation days. The results indicated that the addition of clarithromycin to the soil may cause toxicity in the bacterial communities of the soil. In addition, it was observed that toxicity decreases between 1 and 8 incubation days, while the bacterial community recovers completely in most soils after 42 incubation days. The results also show that soil pH and effective cation exchange capacity may influence CLA toxicity.
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33
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Characteristics and Influencing Factors of Microbial Community in Heavy Metal Contaminated Soil under Silicon Fertilizer and Biochar Remediation. ADSORPT SCI TECHNOL 2021. [DOI: 10.1155/2021/9964562] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Silicon fertilizer and biochar have been widely used to remediate soil contaminated by heavy metals. The effects and mechanism of silicon fertilizer and biochar addition on the heavy metal availability, soil biological properties, and microbial community characteristics need further study in soils contaminated by heavy metals. Therefore, this research determined how silicon fertilizer, biochar, and their combined using affected microbial communities related with nitrogen and phosphorus cycling. The abundance and composition of the microbial community were evaluated by quantitative PCR and phospholipid fatty acid analysis, respectively. Results showed that silicon fertilizer and biochar addition significantly changed soil properties, including pH, total organic carbon, ammonium, nitrate. The Cd and Zn speciation were significantly reduced by silicon fertilizer, biochar, and their integrated application. Microbial community abundance and structure were also significantly changed. Principal component analysis shows that the difference in soil microbial community structure is the most obvious under the combined addition of biochar, silicon fertilizer and biochar. In addition, the results of fluorescence quantitative PCR showed that with biological addition, the number of soil bacteria was significantly reduced. This study reveals the influence of silicon fertilizer and biochar on bacterial and fungal communities in heavy metal soils and the effect of soil heavy metal availability.
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34
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Zhong Q, Cruz-Paredes C, Zhang S, Rousk J. Can heavy metal pollution induce bacterial resistance to heavy metals and antibiotics in soils from an ancient land-mine? JOURNAL OF HAZARDOUS MATERIALS 2021; 411:124962. [PMID: 33440279 DOI: 10.1016/j.jhazmat.2020.124962] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Revised: 12/22/2020] [Accepted: 12/23/2020] [Indexed: 06/12/2023]
Abstract
Microbial resistance to antibiotics is a growing challenge to human health. Recent evidence has indicated that antibiotic resistance can be co-selected for by exposure to heavy metals in agricultural soils. It remains unknown if this is a concern in other environments contaminated by metals. We here investigated soil microbial activities, composition and tolerance to heavy metals and antibiotics in a mining soil survey. We found that microbial respiration, growth, and biomass were affected by available metal concentrations. Most of the variation in microbial PLFA composition was explained by differences in heavy metal and pH. Additionally, pollution-induced bacterial community tolerance to toxicants including Cu, Pb, Zn, tetracycline and vancomycin was determined. Although only bacterial tolerance to Pb increased with higher levels of metals, the links between bacterial metal tolerance and soil metal concentrations were clear when considered together with previously published reports, suggesting that bacterial metal tolerance were universally elevated in the surveyed soils. The induced levels of heavy metal tolerance coincided with elevated levels of tolerance to vancomycin, but not to tetracycline. Our study showed that heavy metals can co-select for resistance to clinically important antibiotics also in ecosystems without manure input or antibiotic pollution.
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Affiliation(s)
- Qinmei Zhong
- College of Environmental Sciences, Sichuan Agricultural University, 611130 Chengdu, China; Microbial Ecology, Department of Biology, Lund University, Ecology Building, 22362 Lund, Sweden.
| | - Carla Cruz-Paredes
- Microbial Ecology, Department of Biology, Lund University, Ecology Building, 22362 Lund, Sweden
| | - Shirong Zhang
- College of Environmental Sciences, Sichuan Agricultural University, 611130 Chengdu, China
| | - Johannes Rousk
- Microbial Ecology, Department of Biology, Lund University, Ecology Building, 22362 Lund, Sweden
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De Silva S, Ball AS, Shahsavari E, Indrapala DV, Reichman SM. The effects of vehicular emissions on the activity and diversity of the roadside soil microbial community. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 277:116744. [PMID: 33676339 DOI: 10.1016/j.envpol.2021.116744] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2020] [Revised: 01/06/2021] [Accepted: 02/04/2021] [Indexed: 06/12/2023]
Abstract
Motor vehicles emit a variety of pollutants including metals, petroleum hydrocarbons and polycyclic aromatic hydrocarbons (PAHs). The relationships between metals, petroleum hydrocarbons and PAHs, soil respiration and microbial diversity (fungi and bacteria) were studied using control (n = 3) and roadside soils (n = 27) with different exposure periods to vehicle emissions (2-63 years). Bacterial diversity was found to be higher than control sites (P = 0.002) but was the same across different categories of road age (P = 0.328). Significant (r = -0.49, P = 0.007) contrasting behaviour of fungal and bacterial diversity was reported, with diversity increasing across all road types for bacteria and decreasing across all road types for fungi compared to control soils. Analysis of the bacterial community identified three distinct clusters, separated on age of contamination, suggesting that roadside bacterial communities change over time with pollution from vehicles with the potential development of metal resistant bacteria in roadside soils. In contrast, for fungal communities, a reduction in diversity with time of exposure to roadside vehicle emissions was observed suggesting the potential for reduced ecosystem functionality and soil health in roadside soils. This is the first study in the published literature to include both bacterial and fungal responses from aged roadside soils. The results from this study suggest that normal functionality of soil ecosystem services is being affected in roadside soils, potentially globally.
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Affiliation(s)
- Shamali De Silva
- School of Engineering, RMIT University, Melbourne, 3001, Australia.
| | - Andrew S Ball
- School of Science, RMIT University, Melbourne, 3001, Australia
| | | | - Demidu V Indrapala
- School of Engineering, RMIT University, Melbourne, 3001, Australia; School of Science, RMIT University, Melbourne, 3001, Australia
| | - Suzie M Reichman
- School of Engineering, RMIT University, Melbourne, 3001, Australia; Centre for Anthropogenic Pollution Impact and Management (CAPIM), School of Biosciences, University of Melbourne, Parkville, 3052, Australia
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Shar S, Reith F, Ball AS, Shahsavari E. Long-term Impact of Gold and Platinum on Microbial Diversity in Australian Soils. MICROBIAL ECOLOGY 2021; 81:977-989. [PMID: 33404821 DOI: 10.1007/s00248-020-01663-x] [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: 07/21/2020] [Accepted: 12/07/2020] [Indexed: 06/12/2023]
Abstract
The effects of platinum (Pt) and gold (Au) and on the soil bacterial community was evaluated in four different Australian soil types (acidic Burn Grounds (BGR), organic matter-rich Fox Lane, high silt/metal Pinpinio (PPN), and alkali Minnipa (MNP) spiked with either Pt or Au at 1, 25, and 100 mg kg-1 using a next-generation sequencing approach (amplicon-based, MiSeq). Soil type and metal concentrations were observed to be key drivers of Pt and Au effects on soil microbial community structure. Different trends were therefore observed in the response of the bacterial community to Pt and Au amendments; however in each soil type, Pt and Au amendment caused a detectable shift in community structure that in most samples was positively correlated with increasing metal concentrations. New dominant groups were only observed in BGR and PPN soils at 100 mg kg-1 (Kazan-3B-28 and Verrucomicrobia groups (BGR, Pt) and Firmicutes and Caldithrix groups (PPN, Pt) and WS2 (BGR, Au). The effects of Pt on soil microbial diversity were largely adverse at 100 mg kg-1 and were pronounced in acidic, basic, and metal/silt-rich soils. However, this effect was concentration-related; Au appeared to be more toxic to soil bacterial communities than Pt at 25 mg kg-1 but Pt was more toxic at 100 mg kg-1. More bacterial groups such as those belonging to Burkholderiales/Burkholderiaceae, Alicyclobacillaceae, Rubrobacteraceae, Cytophagaceae, Oxalobacteraceae were selectively enriched by Pt compared to Au (Sphingomonadaceae and Rhodospirillaceae) amendments irrespective of soil type. The research outcomes have important implications in the management (remediation) of Pt- and Au-contaminated environments.
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Affiliation(s)
- Sahar Shar
- School of Science, RMIT University, PO Box 71, Bundoora, Victoria, 3083, Australia
- Deanship of Scientific Research King Saud University, Riyadh, 11451, Saudi Arabia
| | - Frank Reith
- Department of Molecular and Cellular Biology, School of Biological Sciences, The University of Adelaide, Adelaide, South Australia, 5005, Australia
- CSIRO Land and Water, Environmental Contaminant Mitigation and Technologies, PMB2, Glen Osmond, South Australia, 5064, Australia
| | - Andrew S Ball
- School of Science, RMIT University, PO Box 71, Bundoora, Victoria, 3083, Australia
| | - Esmaeil Shahsavari
- School of Science, RMIT University, PO Box 71, Bundoora, Victoria, 3083, Australia.
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Hao L, Zhang Z, Hao B, Diao F, Zhang J, Bao Z, Guo W. Arbuscular mycorrhizal fungi alter microbiome structure of rhizosphere soil to enhance maize tolerance to La. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 212:111996. [PMID: 33545409 DOI: 10.1016/j.ecoenv.2021.111996] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Revised: 01/17/2021] [Accepted: 01/26/2021] [Indexed: 05/22/2023]
Abstract
Rhizosphere microbes are essential partners for plant stress tolerance. Recent studies indicate that arbuscular mycorrhizal fungi (AMF) can facilitate the revegetation of soils contaminated by heavy metals though interacting with rhizosphere microbiome. However, it is unclear how AMF affect rhizosphere microbiome to improve the growth of plant under rare earth elements (REEs) stress. AMF (Claroideoglomus etunicatum) was inoculated to maize grown in soils spiked with Lanthanum (0 mg kg-1, La0; 10 mg kg-1, La10; 100 mg kg-1, La100; 500 mg kg-1, La500). Plant biomass, nutrient uptake, REE uptake and rhizosphere bacterial and fungal community were evaluated. The results indicated that La100 and La500 decreased significantly root colonization rates and nutrition uptake (K, P, Ca and Mg content). La500 decreased significantly α-diversity indexes of bacterial and fungal community. AMF enhanced significantly the shoot and root fresh and dry weight of maize in all La treatments (except for the root fresh and dry weight of La0 and La10 treatment). For La100 and La500 treatments, AMF increased significantly nutrition uptake (K, P, Ca and Mg content) in shoot of maize by 27.40-441.77%. For La500 treatment, AMF decreased significantly shoot La concentration by 51.53% in maize, but increased significantly root La concentration by 30.45%. In addition, AMF decreased bacterial and fungal Shannon index in La0 treatment, but increased bacterial Shannon index in La500 treatment. Both AMF and La500 affected significantly the bacterial and fungal community composition, and AMF led to more influence than La. AMF promoted the enrichment of bacteria, including Planomicrobium, Lysobacter, Saccharothrix, Agrococcus, Microbacterium, Streptomyces, Penicillium and other unclassified genus, and fungi (Penicillium) in La500, which showed the function for promoting plant growth and tolerance of heavy metal. The study revealed that AMF can regulate the rhizosphere bacterial and fungal composition and foster certain beneficial microbes to enhance the tolerance of maize under La stress. Phytoremediation assisted by AMF is an attractive approach to ameliorate REEs-contaminated soils.
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Affiliation(s)
- Lijun Hao
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Zhechao Zhang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Baihui Hao
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Fengwei Diao
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Jingxia Zhang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Zhihua Bao
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Wei Guo
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Key Laboratory of Ecology and Resource use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China.
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Microbial Community Composition Correlates with Metal Sorption in an Ombrotrophic Boreal Bog: Implications for Radionuclide Retention. SOIL SYSTEMS 2021. [DOI: 10.3390/soilsystems5010019] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Microbial communities throughout the 6.5 m depth profile of a boreal ombrotrophic bog were characterized using amplicon sequencing of archaeal, fungal, and bacterial marker genes. Microbial populations and their relationship to oxic and anoxic batch sorption of radionuclides (using radioactive tracers of I, Se, Cs, Ni, and Ag) and the prevailing metal concentrations in the natural bog was investigated. The majority of the detected archaea belonged to the Crenarchaeota, Halobacterota, and Thermoplasmatota, whereas the fungal communities consisted of Ascomycota, Basidiomycota, and unclassified fungi. The bacterial communities consisted mostly of Acidobacteriota, Proteobacteria, and Chloroflexi. The occurrence of several microbial genera were found to statistically significantly correlate with metal concentrations as well as with Se, Cs, I, and Ag batch sorption data. We suggest that the metal concentrations of peat, gyttja, and clay layers affect the composition of the microbial populations in these nutrient-low conditions and that particularly parts of the bacterial and archaeal communities tolerate high concentrations of potentially toxic metals and may concurrently contribute to the total retention of metals and radionuclides in this ombrotrophic environment. In addition, the varying metal concentrations together with chemical, mineralogical, and physical factors may contribute to the shape of the total archaeal and bacterial populations and most probably shifts the populations for more metal resistant genera.
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Ramana S, Tripathi AK, Kumar A, Singh AB, Bharati K, Sahu A, Rajput PS, Saha JK, Srivastava S, Dey P, Patra AK. Potential of cotton for remediation of Cd-contaminated soils. ENVIRONMENTAL MONITORING AND ASSESSMENT 2021; 193:186. [PMID: 33713208 DOI: 10.1007/s10661-021-08976-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2020] [Accepted: 02/25/2021] [Indexed: 05/27/2023]
Abstract
The present research was conducted to study the potential of cotton for the remediation of soils contaminated with Cd, to understand the biochemical basis of its tolerance to, and to investigate the plant-microbe interaction in the rhizosphere for enhancement of phytoextraction of Cd. Cotton (Bt RCH-2) was exposed to four Cd levels (0, 50, 100, and 200 mg/kg soil) in a completely randomised design and found that the plant could tolerate up to 200 mg/kg soil. Cd stress increased the total phenol, proline, and free amino acid contents in the plant leaf tissue compared with control but inhibited basal soil respiration, fluorescein diacetate hydrolysis, and activities of several enzymes viz. dehydrogenase, phosphatases, and β-glucosidase in the soil over control. The concentration of Cd in the shoot was less than the critical concentration of 100 µg/g dry weight, and bioconcentration and translocation factors were < 1 to classify the plant as a hyperaccumulator of Cd. This was further confirmed by another experiment in which the cotton plant was exposed various higher levels of Cd (200, 400, 600, 800, and 1000 mg/kg soil). Though the concentration of Cd in the shoot was > 100 µg g -1dw beyond 600 mg Cd/kg soil, the bioconcentration and translocation factors were < 1. The study on plant-microbe (Aspergillus awamori) interaction revealed that the fungus did not affect the absorption of Cd by cotton. It was concluded that the cotton was classified as an excluder of Cd and therefore could be suitable for the phytostabilization of Cd-contaminated soils.
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Affiliation(s)
- Sivakoti Ramana
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India.
| | | | - Ajay Kumar
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Amar Bahadur Singh
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Kollah Bharati
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Asha Sahu
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Poonam Singh Rajput
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Jayanta Kumar Saha
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Sanjay Srivastava
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Pradip Dey
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
| | - Ashok K Patra
- ICAR-Indian Institute of Soil Science, Nabi Bagh, Berasia Road, Bhopal, India
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Chen C, Unrine JM, Hu Y, Guo L, Tsyusko OV, Fan Z, Liu S, Wei G. Responses of soil bacteria and fungal communities to pristine and sulfidized zinc oxide nanoparticles relative to Zn ions. JOURNAL OF HAZARDOUS MATERIALS 2021; 405:124258. [PMID: 33153791 DOI: 10.1016/j.jhazmat.2020.124258] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Revised: 10/08/2020] [Accepted: 10/09/2020] [Indexed: 06/11/2023]
Abstract
Zinc oxide nanoparticles (ZnO NPs) are attracting much interest due to their potential toxicity and ubiquity in consumer products. However, understanding of pristine and transformed ZnO NPs impact on soil microbial communities is still limited. Here, we explored changes in the microbial communities of soils treated with pristine and sulfidized ZnO NPs (s-ZnO NPs), and their corresponding Zn ions (ZnSO4) for 30 and 90 days exposures at 100 and 500 mg Zn kg-1. The similarity in bacterial community responses was observed between ZnO NPs and s-ZnO NPs, and these Zn treatments significantly affected the bacterial communities at 90 days, which exhibited distinct patterns compared to ZnSO4. The single-time tested DTPA and H2O extractable Zn ions could not fully explain the observed ZnO NPs and s-ZnO NPs impact on bacterial communities. The two most dominant phylum Nitrospirae and Actinobacteria, associated with the reduction of NH4+-N and dissolved organic carbon, demonstrated significant changes in soils exposed to ZnO NPs and s-ZnO NPs. This suggests the potential long-term impact of transformed ZnO NPs on soil carbon and nitrogen cycling. For fungal communities, we did not find the distinct response patterns of fungal communities between nanoparticulate and ionic Zn exposures.
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Affiliation(s)
- Chun Chen
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China.
| | - Jason M Unrine
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, KY 40546, USA
| | - Yingwei Hu
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China
| | - Lulu Guo
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China
| | - Olga V Tsyusko
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, KY 40546, USA
| | - Zhen Fan
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China
| | - Shuang Liu
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China
| | - Gehong Wei
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, Northwest A&F University, Yangling 712100, Shaanxi, PR China.
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Sukumaran A, Pladwig S, Geddes-McAlister J. Zinc limitation in Klebsiella pneumoniae profiled by quantitative proteomics influences transcriptional regulation and cation transporter-associated capsule production. BMC Microbiol 2021; 21:43. [PMID: 33568055 PMCID: PMC7874612 DOI: 10.1186/s12866-021-02091-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Accepted: 01/12/2021] [Indexed: 01/02/2023] Open
Abstract
Background Microbial organisms encounter a variety of environmental conditions, including changes to metal ion availability. Metal ions play an important role in many biological processes for growth and survival. As such, microbes alter their cellular protein levels and secretion patterns in adaptation to a changing environment. This study focuses on Klebsiella pneumoniae, an opportunistic bacterium responsible for nosocomial infections. By using K. pneumoniae, we aim to determine how a nutrient-limited environment (e.g., zinc depletion) modulates the cellular proteome and secretome of the bacterium. By testing virulence in vitro, we provide novel insight into bacterial responses to limited environments in the presence of the host. Results Analysis of intra- and extracellular changes identified 2380 proteins from the total cellular proteome (cell pellet) and 246 secreted proteins (supernatant). Specifically, HutC, a repressor of the histidine utilization operon, showed significantly increased abundance under zinc-replete conditions, which coincided with an expected reduction in expression of genes within the hut operon from our validating qRT-PCR analysis. Additionally, we characterized a putative cation transport regulator, ChaB that showed significantly higher abundance under zinc-replete vs. -limited conditions, suggesting a role in metal ion homeostasis. Phenotypic analysis of a chaB deletion strain demonstrated a reduction in capsule production, zinc-dependent growth and ion utilization, and reduced virulence when compared to the wild-type strain. Conclusions This is first study to comprehensively profile the impact of zinc availability on the proteome and secretome of K. pneumoniae and uncover a novel connection between zinc transport and capsule production in the bacterial system. Supplementary Information The online version contains supplementary material available at 10.1186/s12866-021-02091-8.
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Affiliation(s)
- A Sukumaran
- Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, N1G 2W1, Canada
| | - S Pladwig
- Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, N1G 2W1, Canada
| | - J Geddes-McAlister
- Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, N1G 2W1, Canada.
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Variation and succession of microbial communities under the conditions of persistent heavy metal and their survival mechanism. Microb Pathog 2021; 150:104713. [DOI: 10.1016/j.micpath.2020.104713] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Revised: 12/18/2020] [Accepted: 12/21/2020] [Indexed: 11/21/2022]
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Song J, Shen Q, Shi J, Xu J, Brookes PC, Liu X. Changes in microbial community structure due to chronic trace element concentrations in different sizes of soil aggregates. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 268:115933. [PMID: 33172699 DOI: 10.1016/j.envpol.2020.115933] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 09/02/2020] [Accepted: 10/25/2020] [Indexed: 06/11/2023]
Abstract
Studies on the effects of trace elements (TEs) (e.g. Cu, Cd, Zn) on soil microbial communities have provided useful information on the toxicity of TEs to microbes. However, previous studies mainly focused on the effects of TEs on microbial community structure in intact soil, while there are few studies on the impact of TEs on microbial community structure in soil aggregates. In this study, soils previously polluted for 20 years, and now containing low and high TE concentrations derived from, now abandoned, metal smelters were sampled from the surface layer (0-15 cm) of two adjacent Chinese paddy fields. The aim was to determine the effects of TEs on the soil microbial biomass and community structure in different sized soil aggregates. Long-term high TE pollution decreased microbial biomass concentration and species, changed the proportion of bacteria and fungi and decreased the diversity of bacteria in the different sized aggregates. The microbial communities in soil aggregates became clustered with increasing TE concentrations.
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Affiliation(s)
- Jiuwei Song
- 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, PR China
| | - Qunli Shen
- 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, PR China
| | - Jiachun Shi
- 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, PR China
| | - Jianming Xu
- 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, PR China
| | - Philip C Brookes
- 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, PR China
| | - Xingmei Liu
- 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, PR China.
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Xiao E, Ning Z, Sun W, Jiang S, Fan W, Ma L, Xiao T. Thallium shifts the bacterial and fungal community structures in thallium mine waste rocks. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 268:115834. [PMID: 33139093 DOI: 10.1016/j.envpol.2020.115834] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 09/04/2020] [Accepted: 10/11/2020] [Indexed: 06/11/2023]
Abstract
Thallium (Tl) is a highly toxic metalloid and is considered a priority pollutant by the US Environmental Protection Agency (EPA). Currently, few studies have investigated the distribution patterns of bacterial and fungal microbiomes in Tl-impacted environments. In this study, we used high-throughput sequencing to assess the bacterial and fungal profiles along a gradient of Tl contents in Tl mine waste rocks in southwestern China. Our results showed that Tl had an important, but different influence on the bacterial and fungal diversity indices. Using linear regression analysis, we furtherly divided the dominant bacterial and fungal groups into three distinct microbial sub-communities thriving at high, moderate, and low levels of Tl. Furthermore, our results also showed that Tl is also an important environmental variable that regulates the distribution patterns of ecological clusters and indicator genera. Interestingly, the microbial groups enriched in the samples with high Tl levels were mainly involved in metal and nutrient cycling. Taken together, our results have provided useful information about the responses of bacterial and fungal groups to Tl contamination.
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Affiliation(s)
- Enzong Xiao
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Zengping Ning
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
| | - Weimin Sun
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China
| | - Shiming Jiang
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Wenjun Fan
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Liang Ma
- State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, 550081, China
| | - Tangfu Xiao
- Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China.
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van der Heyde M, Bunce M, Dixon K, Wardell-Johnson G, White NE, Nevill P. Changes in soil microbial communities in post mine ecological restoration: Implications for monitoring using high throughput DNA sequencing. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 749:142262. [PMID: 33370926 DOI: 10.1016/j.scitotenv.2020.142262] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 08/14/2020] [Accepted: 09/05/2020] [Indexed: 05/20/2023]
Abstract
The ecological restoration of ecosystem services and biodiversity is a key intervention used to reverse the impacts of anthropogenic activities such as mining. Assessment of the performance of restoration against completion criteria relies on biodiversity monitoring. However, monitoring usually overlooks soil microbial communities (SMC), despite increased awareness of their pivotal role in many ecological functions. Recent advances in cost, scalability and technology has led to DNA sequencing being considered as a cost-effective biological monitoring tool, particularly for otherwise difficult to survey groups such as microbes. However, such approaches for monitoring complex restoration sites such as post-mined landscapes have not yet been tested. Here we examine bacterial and fungal communities across chronosequences of mine site restoration at three locations in Western Australia to determine if there are consistent changes in SMC diversity, community composition and functional capacity. Although we detected directional changes in community composition indicative of microbial recovery, these were inconsistent between locations and microbial taxa (bacteria or fungi). Assessing functional diversity provided greater understanding of changes in site conditions and microbial recovery than could be determined through assessment of community composition alone. These results demonstrate that high-throughput amplicon sequencing of environmental DNA (eDNA) is an effective approach for monitoring the complex changes in SMC following restoration. Future monitoring of mine site restoration using eDNA should consider archiving samples to provide improved understanding of changes in communities over time. Expansion to include other biological groups (e.g. soil fauna) and substrates would also provide a more holistic understanding of biodiversity recovery.
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Affiliation(s)
- M van der Heyde
- ARC Centre for Mine Site Restoration, School of Molecular and Life Sciences, Curtin University, Bentley, GPO Box U1987, Perth, Western Australia 6845, Australia; Trace and Environmental DNA Laboratory, School of Life and Molecular Sciences, Curtin University, GPO Box U1987, Perth, Westeren Australia 6845, Australia.
| | - M Bunce
- Trace and Environmental DNA Laboratory, School of Life and Molecular Sciences, Curtin University, GPO Box U1987, Perth, Westeren Australia 6845, Australia; Environmental Protection Authority, 215 Lambton Quay, Wellington 6011, New Zealand
| | - K Dixon
- ARC Centre for Mine Site Restoration, School of Molecular and Life Sciences, Curtin University, Bentley, GPO Box U1987, Perth, Western Australia 6845, Australia
| | - G Wardell-Johnson
- ARC Centre for Mine Site Restoration, School of Molecular and Life Sciences, Curtin University, Bentley, GPO Box U1987, Perth, Western Australia 6845, Australia
| | - N E White
- Trace and Environmental DNA Laboratory, School of Life and Molecular Sciences, Curtin University, GPO Box U1987, Perth, Westeren Australia 6845, Australia
| | - P Nevill
- ARC Centre for Mine Site Restoration, School of Molecular and Life Sciences, Curtin University, Bentley, GPO Box U1987, Perth, Western Australia 6845, Australia; Trace and Environmental DNA Laboratory, School of Life and Molecular Sciences, Curtin University, GPO Box U1987, Perth, Westeren Australia 6845, Australia
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Hao X, Zhu J, Rensing C, Liu Y, Gao S, Chen W, Huang Q, Liu YR. Recent advances in exploring the heavy metal(loid) resistant microbiome. Comput Struct Biotechnol J 2020; 19:94-109. [PMID: 33425244 PMCID: PMC7771044 DOI: 10.1016/j.csbj.2020.12.006] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2020] [Revised: 12/03/2020] [Accepted: 12/05/2020] [Indexed: 12/18/2022] Open
Abstract
Heavy metal(loid)s exert selective pressure on microbial communities and evolution of metal resistance determinants. Despite increasing knowledge concerning the impact of metal pollution on microbial community and ecological function, it is still a challenge to identify a consistent pattern of microbial community composition along gradients of elevated metal(loid)s in natural environments. Further, our current knowledge of the microbial metal resistome at the community level has been lagging behind compared to the state-of-the-art genetic profiling of bacterial metal resistance mechanisms in a pure culture system. This review provides an overview of the core metal resistant microbiome, development of metal resistance strategies, and potential factors driving the diversity and distribution of metal resistance determinants in natural environments. The impacts of biotic factors regulating the bacterial metal resistome are highlighted. We finally discuss the advances in multiple technologies, research challenges, and future directions to better understand the interface of the environmental microbiome with the metal resistome. This review aims to highlight the diversity and wide distribution of heavy metal(loid)s and their corresponding resistance determinants, helping to better understand the resistance strategy at the community level.
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Affiliation(s)
- Xiuli Hao
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
- Hubei Key Laboratory of Soil Environment and Pollution Remediation, Huazhong Agricultural University, Wuhan 430070, China
- Corresponding authors at: State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China.
| | - Jiaojiao Zhu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Christopher Rensing
- Institute of Environmental Microbiology, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, China
| | - Ying Liu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Shenghan Gao
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Wenli Chen
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
| | - Qiaoyun Huang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
- Hubei Key Laboratory of Soil Environment and Pollution Remediation, Huazhong Agricultural University, Wuhan 430070, China
| | - Yu-Rong Liu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
- College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
- Hubei Key Laboratory of Soil Environment and Pollution Remediation, Huazhong Agricultural University, Wuhan 430070, China
- Corresponding authors at: State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China.
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Arisht SN, Abdul PM, Jasni J, Mohd Yasin NH, Lin SK, Wu SY, Takriff MS, Jahim JM. Dose-response analysis of toxic effect from palm oil mill effluent (POME) by-products on biohydrogen producing bacteria - A preliminary study on microbial density and determination of EC 50. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 203:110991. [PMID: 32888602 DOI: 10.1016/j.ecoenv.2020.110991] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2020] [Revised: 06/19/2020] [Accepted: 07/05/2020] [Indexed: 06/11/2023]
Abstract
The stimulant and toxicity effects of reported organic (acetic acid, propionic acid, butyric acid, formic acid, oil & grease) and inorganic (copper) by-products presented in palm oil mill effluent on anaerobic bacterial population were examined in this paper. The toxicity test had shown that acetic, propionic and butyric acids tend to stimulate the bacterial density level (survival rate more than 50%), while formic acid, copper, oil and grease were shown to have suppressed the density level (survival rate less than 50%). The highest biomass recorded was 1.66 mg/L for the concentration of acetic acid at 216 mg/L and lowest biomass concentration, 0.90 mg/L for copper at 1.40 mg/L. Biohydrogen-producing bacteria have a favourable growth rate around pH 5.5. The comparison of half maximal effective concentration (EC50) values between two test duration on the effects of organic and inorganic by-products postulate that bacteria had a higher tolerance towards volatile fatty acids. While acetic, butyric and propionic acids had exhibited higher tolerance EC50 values for bacteria, but the opposite trend was observed for formic acid, copper and oil & grease.
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Affiliation(s)
- Shalini Narayanan Arisht
- Department of Chemical and Process Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia
| | - Peer Mohamed Abdul
- Department of Chemical and Process Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia; Research Centre for Sustainable Process Technology, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM, Bangi, Selangor, Malaysia.
| | - Jannatulhawa Jasni
- Department of Chemical and Process Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia
| | - Nazlina Haiza Mohd Yasin
- Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia
| | - Sheng-Kai Lin
- Department of Chemical Engineering, Feng Chia University, Taichung, 40724, Taiwan
| | - Shu-Yii Wu
- Department of Chemical Engineering, Feng Chia University, Taichung, 40724, Taiwan; Green Energy Development Center, Feng Chia University, Taichung, 40724, Taiwan
| | - Mohd Sobri Takriff
- Department of Chemical and Process Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia; Research Centre for Sustainable Process Technology, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM, Bangi, Selangor, Malaysia
| | - Jamaliah Md Jahim
- Department of Chemical and Process Engineering, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia; Research Centre for Sustainable Process Technology, Faculty of Engineering and Built Environment, Universiti Kebangsaan Malaysia, 43600, UKM, Bangi, Selangor, Malaysia
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Durand A, Maillard F, Foulon J, Chalot M. Interactions between Hg and soil microbes: microbial diversity and mechanisms, with an emphasis on fungal processes. Appl Microbiol Biotechnol 2020; 104:9855-9876. [PMID: 33043392 DOI: 10.1007/s00253-020-10795-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2020] [Revised: 07/06/2020] [Accepted: 07/21/2020] [Indexed: 11/25/2022]
Abstract
Mercury (Hg) is a highly toxic metal with no known biological function, and it can be highly bioavailable in terrestrial ecosystems. Although fungi are important contributors to a number of soil processes including plant nutrient uptake and decomposition, little is known about the effect of Hg on fungi. Fungi accumulate the largest amount of Hg and are the organisms capable of the highest bioaccumulation of Hg. While referring to detailed mechanisms in bacteria, this mini-review emphasizes the progress made recently on this topic and represents the first step towards a better understanding of the mechanisms underlying Hg tolerance and accumulation in fungal species and hence on the role of fungi within the Hg cycle at Hg-contaminated sites. KEY POINTS: • The fungal communities are more resilient than bacterial communities to Hg exposure. • The exposure to Hg is a threat to microbial soil functions involved in both C and nutrient cycles. • Fungal (hyper)accumulation of Hg may be important for the Hg cycle in terrestrial environments. • Understanding Hg tolerance and accumulation by fungi may lead to new remediation biotechnologies.
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Affiliation(s)
- Alexis Durand
- Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211, Montbéliard, France
- Laboratoire Sols et Environnement, UMR 1120, Université de Lorraine - INRAE, 2 avenue de la Forêt de Haye BP 20 163, 54505, Vandœuvre-lès-Nancy, France
| | - François Maillard
- Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211, Montbéliard, France
- Department of Plant and Microbial Biology, University of Minnesota, St. Paul, MN, 55108, USA
| | - Julie Foulon
- Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211, Montbéliard, France
- Institut des Sciences de la Mer de Rimouski, Université du Québec à Rimouski, 310 Allée des Ursulines, C.P. 3300, Rimouski, QC, G5L 3A1, Canada
| | - Michel Chalot
- Laboratoire Chrono-Environnement, UMR 6249, Université de Bourgogne Franche-Comté, Pôle Universitaire du Pays de Montbéliard, 4 place Tharradin, BP 71427, 25211, Montbéliard, France.
- Faculté des Sciences et Technologies, Université de Lorraine, BP 70239, 54506, Vandoeuvre-les-Nancy, France.
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Liu YM, Cao WQ, Chen XX, Yu BG, Lang M, Chen XP, Zou CQ. The responses of soil enzyme activities, microbial biomass and microbial community structure to nine years of varied zinc application rates. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 737:140245. [PMID: 32783848 DOI: 10.1016/j.scitotenv.2020.140245] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2020] [Revised: 05/30/2020] [Accepted: 06/13/2020] [Indexed: 05/27/2023]
Abstract
Zinc (Zn) fertilizer application can certainly improve the production and nutritional quality of cereal crops. However, Zn accumulation in the soil may lead to some deleterious environmental impacts in agroecosystems. The effects of long-term Zn application on soil microbial properties remain unclear, but it is imperative to understand such effects. In this study, we collected soil samples from a nine-year field experiment in a wheat-maize system that continuously received Zn applied at various rates (0, 2.3, 5.7, 11.4, 22.7 and 34.1 kg ha-1) to evaluate the soil enzymes, microbial biomass and microbial community structure. The results showed that Zn application at the rate of 5.7 kg ha-1 significantly increased the activities of urease, invertase, alkaline phosphatase and catalase in the soil, while the rate of 34.1 kg ha-1 significantly decreased the evaluated enzyme activities. The microbial biomass carbon (C) and nitrogen (N) were not affected by Zn application rates, although an increase in the microbial biomass C was observed in the 11.4 kg ha-1 treatment. Moreover, the alpha diversity of the bacterial and fungal communities did not vary among the nil Zn, optimal Zn (5.7 kg ha-1) and excess Zn (34.1 kg ha-1) treatments. However, the bacterial communities in the soil receiving the optimal and excess Zn application rates were slightly changed. Compared to the nil Zn treatment, the other Zn application rates increased the relative abundances of the Rhodospirillales, Gaiellales and Frankiales orders and decreased the abundance of the Latescibacteria phylum. The redundancy analysis further indicated that the soil bacterial community composition significantly correlated with the concentrations of soil DTPA-Zn and total Zn. These results highlight the importance of optimal Zn application in achieving high production and high grain quality while concurrently promoting soil microbial activity, improving the bacterial community and further maintaining the sustainability of the agroecological environment.
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Affiliation(s)
- Yu-Min Liu
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, China Agricultural University, Beijing 100193, China
| | - Wen-Qing Cao
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, China Agricultural University, Beijing 100193, China
| | - Xiu-Xiu Chen
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, China Agricultural University, Beijing 100193, China
| | - Bao-Gang Yu
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, China Agricultural University, Beijing 100193, China
| | - Ming Lang
- College of Resources and Environment, Southwest University, Chongqing 400715, China
| | - Xin-Ping Chen
- College of Resources and Environment, Southwest University, Chongqing 400715, China
| | - Chun-Qin Zou
- College of Resources and Environmental Sciences, National Academy of Agriculture Green Development, Key Laboratory of Plant-Soil Interactions, Ministry of Education, China Agricultural University, Beijing 100193, China.
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50
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Baudy P, Konschak M, Sakpal H, Baschien C, Schulz R, Bundschuh M, Zubrod JP. The Fungicide Tebuconazole Confounds Concentrations of Molecular Biomarkers Estimating Fungal Biomass. BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2020; 105:620-625. [PMID: 32857223 DOI: 10.1007/s00128-020-02977-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Accepted: 08/18/2020] [Indexed: 06/11/2023]
Abstract
Due to their ecological importance, fungi are suitable indicator organisms for anthropogenic stress. To estimate fungal biomass, the fungal membrane molecule ergosterol is often quantified as a proxy. Estimates based on ergosterol may, however, be distorted by exposure to demethylase inhibiting (DMI) fungicides, interfering with sterol synthesis. To test this hypothesis, we exposed ten fungal species to the DMI fungicide tebuconazole and measured concentrations of ergosterol and DNA per unit dry mass of the fungal hyphae. The latter served as alternative biomass proxy that is not specifically targeted by tebuconazole. Effects of tebuconazole on ergosterol concentrations were species-specific, while concentrations were on average reduced by 13%. In contrast, DNA concentrations were on average increased by 13%. We demonstrate that DMI fungicides - at close to field relevant levels - can distort fungal biomass estimation, complicating the use of this endpoint for environmental management.
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Affiliation(s)
- Patrick Baudy
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany.
| | - Marco Konschak
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany
| | - Harshada Sakpal
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany
| | - Christiane Baschien
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstraße 7B, 38124, Braunschweig, Germany
| | - Ralf Schulz
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany
- Eußerthal Ecosystem Research Station, University of Koblenz-Landau, Birkenthalstraße 13, 76857, Eußerthal, Germany
| | - Mirco Bundschuh
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany.
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Box 7050, 75007, Uppsala, Sweden.
| | - Jochen P Zubrod
- iES Landau, Institute for Environmental Sciences, University of Koblenz-Landau, Fortstraße 7, 76829, Landau, Germany
- Eußerthal Ecosystem Research Station, University of Koblenz-Landau, Birkenthalstraße 13, 76857, Eußerthal, Germany
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