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Zhao L, Xiao R, Zhang S, Zhang C, Zhang F. Environmental specificity of karst cave habitats evidenced by diverse symbiotic bacteria in Opiliones. BMC Ecol Evol 2024; 24:58. [PMID: 38720266 PMCID: PMC11080181 DOI: 10.1186/s12862-024-02248-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Accepted: 04/30/2024] [Indexed: 05/12/2024] Open
Abstract
BACKGROUND Karst caves serve as natural laboratories, providing organisms with extreme and constant conditions that promote isolation, resulting in a genetic relationship and living environment that is significantly different from those outside the cave. However, research on cave creatures, especially Opiliones, remains scarce, with most studies focused on water, soil, and cave sediments. RESULTS The structure of symbiotic bacteria in different caves were compared, revealing significant differences. Based on the alpha and beta diversity, symbiotic bacteria abundance and diversity in the cave were similar, but the structure of symbiotic bacteria differed inside and outside the cave. Microorganisms in the cave play an important role in material cycling and energy flow, particularly in the nitrogen cycle. Although microbial diversity varies inside and outside the cave, Opiliones in Beijing caves and Hainan Island exhibited a strong similarity, indicating that the two environments share commonalities. CONCLUSIONS The karst cave environment possesses high microbial diversity and there are noticeable differences among different caves. Different habitats lead to significant differences in the symbiotic bacteria in Opiliones inside and outside the cave, and cave microorganisms have made efforts to adapt to extreme environments. The similarity in symbiotic bacteria community structure suggests a potential similarity in host environments, providing an explanation for the appearance of Sinonychia martensi in caves in the north.
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Affiliation(s)
- Likun Zhao
- School of Life Sciences, Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P.R. China
- The Key Laboratory of Microbial Diversity Research and Application of Hebei Province, Baoding, 071002, P. R. China
| | - Ruoyi Xiao
- School of Life Sciences, Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P.R. China
| | - Shanfeng Zhang
- School of Life Sciences, Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P.R. China
| | - Chao Zhang
- School of Life Sciences, Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P.R. China.
- The Key Laboratory of Zoological Systematics and Application of Hebei Province, Baoding, 071002, P. R. China.
| | - Feng Zhang
- School of Life Sciences, Institute of Life Science and Green Development, Hebei University, Baoding, 071002, P.R. China.
- The Key Laboratory of Zoological Systematics and Application of Hebei Province, Baoding, 071002, P. R. China.
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2
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Vallejos A, Sola F, Vargas-García MC, Mancuso M. Microbial-induced MnO 2 precipitation in a carbonate coastal aquifer. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 915:169968. [PMID: 38220013 DOI: 10.1016/j.scitotenv.2024.169968] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2023] [Revised: 12/18/2023] [Accepted: 01/04/2024] [Indexed: 01/16/2024]
Abstract
A study was carried out to identify biogeochemical reactions along a transect of a coastal dolomitic aquifer. In this transect, the physicochemical parameters of the groundwater as well as the microbial composition of samples taken at different depths and salinities were measured. Many of the dissolved ions measured in the groundwater follow a pattern that reflects the distribution of the water masses (fresh, interface and salt) in the aquifer, while others such as Ca and Mg ions deviate from this trend by identifying the zones of maximum dissolution of the carbonate matrix. The concentrations of minor ions, such as Fe and Mn, also follow a singular pattern, with maximum concentrations in the reducing zones of the aquifer and lower values in the oxidizing zones. Precipitates of Mn oxides along with other metals, such as Fe, Ba, Zn and Ni, were observed in the saline zone displaying oxidizing conditions close to the coastline, where a continuous core was recovered. This zone, which is located below the freshwater-seawater mixing zone and features percentages of seawater higher than 80 %, is characterized by the presence of Marinobacter as the predominant genus. These bacteria are also related to the formation of Mn-rich polymetallic oxides in other contexts such as the ocean floor (Wang et al., 2012; Cao et al., 2021). All in all, a biogeochemical reaction model is proposed that describes the formation of these oxides in areas close to the discharge zone of coastal aquifers. To do this, it has been necessary to integrate the results obtained from geochemical, hydrogeological and microbiological information.
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Affiliation(s)
- A Vallejos
- Water Resources and Environmental Geology, Department of Biology & Geology, University of Almería, Spain.
| | - F Sola
- Water Resources and Environmental Geology, Department of Biology & Geology, University of Almería, Spain
| | - M C Vargas-García
- Unit of Microbiology, Department of Biology and Geology, CITE II-B, University of Almeria, Marine Campus of International Excellence CEIMAR, 04120 Almeria, Spain
| | - M Mancuso
- Engineering and Environmental Technology Department, Universidade Federal de Santa Maria, UFSM, Brazil
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Gogoleva N, Chervyatsova O, Balkin A, Kuzmina L, Shagimardanova E, Kiseleva D, Gogolev Y. Microbial tapestry of the Shulgan-Tash cave (Southern Ural, Russia): influences of environmental factors on the taxonomic composition of the cave biofilms. ENVIRONMENTAL MICROBIOME 2023; 18:82. [PMID: 37990336 PMCID: PMC10662634 DOI: 10.1186/s40793-023-00538-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Accepted: 11/09/2023] [Indexed: 11/23/2023]
Abstract
BACKGROUND Cave biotopes are characterized by stable low temperatures, high humidity, and scarcity of organic substrates. Despite the harsh oligotrophic conditions, they are often inhabited by rich microbial communities. Abundant fouling with a wide range of morphology and coloration of colonies covers the walls of the Shulgan-Tash cave in the Southern Urals. This cave is also famous for the unique Paleolithic painting discovered in the middle of the last century. We aimed to investigate the diversity, distribution, and potential impact of these biofilms on the cave's Paleolithic paintings, while exploring how environmental factors influence the microbial communities within the cave. RESULTS The cave's biofilm morphotypes were categorized into three types based on the ultrastructural similarities. Molecular taxonomic analysis identified two main clusters of microbial communities, with Actinobacteria dominating in most of them and a unique "CaveCurd" community with Gammaproteobacteria prevalent in the deepest cave sections. The species composition of these biofilms reflects changes in environmental conditions, such as substrate composition, temperature, humidity, ventilation, and CO2 content. Additionally, it was observed that cave biofilms contribute to biocorrosion on cave wall surfaces. CONCLUSIONS The Shulgan-Tash cave presents an intriguing example of a stable extreme ecosystem with diverse microbiota. However, the intense dissolution and deposition of carbonates caused by Actinobacteria pose a potential threat to the preservation of the cave's ancient rock paintings.
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Affiliation(s)
- Natalia Gogoleva
- Research Department for Limnology, Mondsee, Universität Innsbruck, Mondsee, 5310, Austria.
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420111, Russia.
| | | | - Alexander Balkin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420111, Russia
- Institute for Cellular and Intracellular Symbiosis, Ural Branch of the Russian Academy of Sciences, Orenburg, 460000, Russia
| | - Lyudmila Kuzmina
- Ufa Institute of Biology, Ufa Federal Research Center, Russian Academy of Sciences, Ufa, 450054, Russia
| | - Elena Shagimardanova
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420111, Russia
- Loginov Moscow Clinical Scientific Center, Moscow, 111123, Russia
| | - Daria Kiseleva
- Institute of Geology and Geochemistry, Ural Branch of the Russian Academy of Sciences, Ekaterinburg, 620016, Russia
- Institute of Fundamental Education, Ural Federal University named after the first President of Russia B.N. Yeltsin, Ekaterinburg, 620002, Russia
| | - Yuri Gogolev
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kazan, 420111, Russia
- Kazan Institute of Biochemistry and Biophysics, Federal Research Center "Kazan Scientific Center of the Russian Academy of Sciences", Kazan, 420111, Russia
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4
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Li X, Ren H, Xu Z, Chen G, Zhang S, Zhang L, Sun Y. Practical application for legacy acid mine drainage (AMD) prevention and treatment technologies in karst-dominated regions: A case study. JOURNAL OF CONTAMINANT HYDROLOGY 2023; 258:104238. [PMID: 37673015 DOI: 10.1016/j.jconhyd.2023.104238] [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: 04/05/2023] [Revised: 07/27/2023] [Accepted: 08/29/2023] [Indexed: 09/08/2023]
Abstract
Acid mine drainage (AMD) from abandoned mines in karst-dominated regions in southwestern China was causing contamination of groundwater and surface streams. To avert the unwise decisions of "pollution first before treatment" during pre-mining, mid-mining and post-mining activities, this paper proposes a contaminant migration prevention technical framework covering 4 comprehensive processes. The formation mechanism of spring pollution, engineering remediation processes and contamination treatment effects were described in Longdong Spring. In 2018, the Longdong Spring water had Fe 33.83 mg/L and Mn 3.60 mg/L, exceeding the Chinese surface water standard (0.3 mg/L and 0.1 mg/L in GB 3838-2002) by 112 and 36 times, respectively. In 2020, after grout blocking, in situ treatment and wetland remediation, the highest Fe was 4.5 mg/L in a short period, and the spring water pollution days in this year were 42 days compared with the previous 320 spring water pollution days in 2018. In 2021, two years of remediation with the implementation of terminal remediation wetlands, the Fe was less than 0.03 mg/L compared with the previous 33.83 mg/L, and the water quality reached water standard (less than 0.3 mg/L). At present, Longdong Spring has become one of the most beautiful natural local landscapes.
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Affiliation(s)
- Xin Li
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China
| | - Hujun Ren
- China Coal Hydrogeological Bureau Group Company, 18 Dafeng Road, Hongqiao District, Tianjin 300131, People's Republic of China
| | - Zhimin Xu
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China; Fundamental Research Laboratory for Mine Water Hazards Prevention and Controlling Technology, Xuzhou 221006, Jiangsu, People's Republic of China.
| | - Ge Chen
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China
| | - Shangguo Zhang
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China
| | - Li Zhang
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China
| | - Yajun Sun
- School of Resources and Geosciences, China University of Mining and Technology, Xuzhou 221116, Jiangsu, People's Republic of China; Fundamental Research Laboratory for Mine Water Hazards Prevention and Controlling Technology, Xuzhou 221006, Jiangsu, People's Republic of China.
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Bondu R, Casiot C, Pistre S, Batiot-Guilhe C. Impact of past mining activities on water quality in a karst area in the Cévennes region, Southern France. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 873:162274. [PMID: 36801320 DOI: 10.1016/j.scitotenv.2023.162274] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Revised: 01/20/2023] [Accepted: 02/12/2023] [Indexed: 06/18/2023]
Abstract
Sampling and analysis of groundwater and surface water were conducted to assess the potential impacts of abandoned mines on water quality in a karst area in Southern France. The results of multivariate statistical analysis and geochemical mapping revealed that water quality is affected by contaminated drainage from abandoned mine sites. Acid mine drainage with very high concentrations of Fe, Mn, Al, Pb and Zn was identified in a few samples collected from mine openings and near waste dumps. In general, neutral drainage with elevated concentrations of Fe, Mn, Zn, As, Ni and Cd was observed due to buffering by carbonate dissolution. The contamination is spatially limited around abandoned mine sites, suggesting that metal(oid)s are sequestered in secondary phases that form under near-neutral and oxidizing conditions. However, the analysis of seasonal variations in trace metal concentrations showed that the transport of metal contaminants in water is highly variable according to hydrological conditions. During low flow conditions, trace metals are likely to be rapidly sequestered in Fe-oxyhydroxides and carbonate minerals in the karst aquifer and the river sediments, while low or no surface runoff in intermittent rivers limits the transport of contaminants in the environment. On the other hand, significant amounts of metal(loid)s can be transported under high flow conditions, primarily in dissolved form. Dissolved metal(loid) concentrations in groundwater remained elevated despite dilution by uncontaminated water, likely as a result of the increased leaching of mine wastes and the flushing of contaminated waters from mine workings. This work shows that groundwater is the main source of contamination to the environment and highlights the need to better understand the fate of trace metals in karst water systems.
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Affiliation(s)
- Raphaël Bondu
- HydroSciences Montpellier, Univ. Montpellier, CNRS, IRD, IMT Mines Alès, Montpellier, France; Groundwater Research Group (GRES), Research Institute on Mines and Environment (RIME), Université du Québec en Abitibi-Témiscamingue (UQAT), Amos, QC, Canada.
| | - Corinne Casiot
- HydroSciences Montpellier, Univ. Montpellier, CNRS, IRD, IMT Mines Alès, Montpellier, France
| | - Séverin Pistre
- HydroSciences Montpellier, Univ. Montpellier, CNRS, IRD, IMT Mines Alès, Montpellier, France
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Farda B, Vaccarelli I, Ercole C, Djebaili R, Del Gallo M, Pellegrini M. Exploring structure, microbiota, and metagenome functions of epigean and hypogean black deposits by microscopic, molecular and bioinformatic approaches. Sci Rep 2022; 12:19405. [PMID: 36371463 PMCID: PMC9653421 DOI: 10.1038/s41598-022-24159-9] [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: 05/19/2022] [Accepted: 11/10/2022] [Indexed: 11/13/2022] Open
Abstract
This study revealed how Bacteria and Archaea communities and their metabolic functions differed between two groups of black deposits identified in gorge and cave environments. Scanning electron microscopy coupled with energy dispersive spectroscopy was used to analyse the presence of microbial biosignatures and the elemental composition of samples. Metabarcoding of the V3-V4 regions of 16S rRNA was used to investigate Bacteria and Archaea communities. Based on 16S rRNA sequencing results, PICRUSt software was used to predict metagenome functions. Micrographs showed that samples presented microbial biosignatures and microanalyses highlighted Mn concretions and layers on Al-Si surfaces. The 16S rRNA metabarcoding alpha-diversity metrics showed similar Simpson's and Shannon indices and different values of the Chao-1 index. The amplicon sequence variants (ASVs) analysis at the different taxonomic levels showed a diverse genera composition. However, the communities of all samples shared the presence of uncultured ASVs belonging to the Gemmatales family (Phylogenesis: Gemmataceae; Planctomycetes; Planctomycetota; Bacteria). The predicted metagenome functions analysis revealed diverse metabolic profiles of the Cave and Gorge groups. Genes coding for essential Mn metabolism were present in all samples. Overall, the findings on structure, microbiota, and predicted metagenome functions showed a similar microbial contribution to epigean and hypogean black deposits Mn metabolism.
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Affiliation(s)
- Beatrice Farda
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
| | - Ilaria Vaccarelli
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
| | - Claudia Ercole
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
| | - Rihab Djebaili
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
| | - Maddalena Del Gallo
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
| | - Marika Pellegrini
- grid.158820.60000 0004 1757 2611Department of Life, Health and Environmental Sciences, University of L’Aquila, L’Aquila, Italy
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Paganin P, Alisi C, Dore E, Fancello D, Marras PA, Medas D, Montereali MR, Naitza S, Rigonat N, Sprocati AR, Tasso F, Vacca S, De Giudici G. Microbial Diversity of Bacteria Involved in Biomineralization Processes in Mine-Impacted Freshwaters. Front Microbiol 2021; 12:778199. [PMID: 34880845 PMCID: PMC8645857 DOI: 10.3389/fmicb.2021.778199] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 10/14/2021] [Indexed: 11/13/2022] Open
Abstract
In order to increase the knowledge about geo-bio interactions in extreme metal-polluted mine waters, we combined microbiological, mineralogical, and geochemical analyses to study the indigenous sulfate-reducing bacteria (SRB) involved in the heavy metal (HM) biomineralization processes occurring in Iglesiente and Arburese districts (SW Sardinia, Italy). Anaerobic cultures from sediments of two different mining-affected streams of this regional framework were enriched and analyzed by 16S rRNA next-generation sequencing (NGS) technique, showing sequences closely related to SRB classified in taxa typical of environments with high concentrations of metals (Desulfovibrionaceae, Desulfosporosinus). Nevertheless, the most abundant genera found in our samples did not belong to the traditional SRB groups (i.e., Rahnella, Acinetobacter). The bio-precipitation process mediated by these selected cultures was assessed by anaerobic batch tests performed with polluted river water showing a dramatic (more than 97%) Zn decrease. Scanning electron microscopy (SEM) analysis revealed the occurrence of Zn sulfide with tubular morphology, suggesting a bacteria-mediated bio-precipitation. The inocula represent two distinct communities of microorganisms, each adapted to peculiar environmental conditions. However, both the communities were able to use pollutants in their metabolism and tolerating HMs by detoxification mechanisms. The Zn precipitation mediated by the different enriched cultures suggests that SRB inocula selected in this study have great potentialities for the development of biotechnological techniques to reduce contaminant dispersion and for metal recovery.
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Affiliation(s)
- Patrizia Paganin
- Territorial and Production Systems Sustainability Department, Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Rome, Italy
| | - Chiara Alisi
- Territorial and Production Systems Sustainability Department, Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Rome, Italy
| | - Elisabetta Dore
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Dario Fancello
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Pier Andrea Marras
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Daniela Medas
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Maria Rita Montereali
- Territorial and Production Systems Sustainability Department, Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Rome, Italy
| | - Stefano Naitza
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Nicola Rigonat
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Anna Rosa Sprocati
- Territorial and Production Systems Sustainability Department, Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Rome, Italy
| | - Flavia Tasso
- Territorial and Production Systems Sustainability Department, Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), Rome, Italy
| | - Salvatore Vacca
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
| | - Giovanni De Giudici
- Department of Chemical and Geological Sciences, University of Cagliari, Cittadella Universitaria, Cagliari, Italy
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Newsome L, Falagán C. The Microbiology of Metal Mine Waste: Bioremediation Applications and Implications for Planetary Health. GEOHEALTH 2021; 5:e2020GH000380. [PMID: 34632243 PMCID: PMC8490943 DOI: 10.1029/2020gh000380] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 08/17/2021] [Accepted: 08/20/2021] [Indexed: 05/13/2023]
Abstract
Mine wastes pollute the environment with metals and metalloids in toxic concentrations, causing problems for humans and wildlife. Microorganisms colonize and inhabit mine wastes, and can influence the environmental mobility of metals through metabolic activity, biogeochemical cycling and detoxification mechanisms. In this article we review the microbiology of the metals and metalloids most commonly associated with mine wastes: arsenic, cadmium, chromium, copper, lead, mercury, nickel and zinc. We discuss the molecular mechanisms by which bacteria, archaea, and fungi interact with contaminant metals and the consequences for metal fate in the environment, focusing on long-term field studies of metal-impacted mine wastes where possible. Metal contamination can decrease the efficiency of soil functioning and essential element cycling due to the need for microbes to expend energy to maintain and repair cells. However, microbial communities are able to tolerate and adapt to metal contamination, particularly when the contaminant metals are essential elements that are subject to homeostasis or have a close biochemical analog. Stimulating the development of microbially reducing conditions, for example in constructed wetlands, is beneficial for remediating many metals associated with mine wastes. It has been shown to be effective at low pH, circumneutral and high pH conditions in the laboratory and at pilot field-scale. Further demonstration of this technology at full field-scale is required, as is more research to optimize bioremediation and to investigate combined remediation strategies. Microbial activity has the potential to mitigate the impacts of metal mine wastes, and therefore lessen the impact of this pollution on planetary health.
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Affiliation(s)
- Laura Newsome
- Camborne School of Mines and Environment and Sustainability InstituteUniversity of ExeterPenrynUK
| | - Carmen Falagán
- Camborne School of Mines and Environment and Sustainability InstituteUniversity of ExeterPenrynUK
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