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Antony R, Mongad D, Sanyal A, Dhotre D, Thamban M. Holed up, but thriving: Impact of multitrophic cryoconite communities on glacier elemental cycles. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 933:173187. [PMID: 38750762 DOI: 10.1016/j.scitotenv.2024.173187] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2023] [Revised: 05/10/2024] [Accepted: 05/10/2024] [Indexed: 05/20/2024]
Abstract
Cryoconite holes (water and sediment-filled depressions), found on glacier surfaces worldwide, serve as reservoirs of microbes, carbon, trace elements, and nutrients, transferring these components downstream via glacier hydrological networks. Through targeted amplicon sequencing of carbon and nitrogen cycling genes, coupled with functional inference-based methods, we explore the functional diversity of these mini-ecosystems within Antarctica and the Himalayas. These regions showcase distinct environmental gradients and experience varying rates of environmental change influenced by global climatic shifts. Analysis revealed a diverse array of photosynthetic microorganisms, including Stramenopiles, Cyanobacteria, Rhizobiales, Burkholderiales, and photosynthetic purple sulfur Proteobacteria. Functional inference highlighted the high potential for carbohydrate, amino acid, and lipid metabolism in the Himalayan region, where organic carbon concentrations surpassed those in Antarctica by up to 2 orders of magnitude. Nitrogen cycling processes, including fixation, nitrification, and denitrification, are evident, with Antarctic cryoconite exhibiting a pronounced capacity for nitrogen fixation, potentially compensating for the limited nitrate concentrations in this region. Processes associated with the respiration of elemental sulfur and inorganic sulfur compounds such as sulfate, sulfite, thiosulfate, and sulfide suggest the presence of a complete sulfur cycle. The Himalayan region exhibits a higher potential for sulfur cycling, likely due to the abundant sulfate ions and sulfur-bearing minerals in this region. The capability for complete iron cycling through iron oxidation and reduction reactions was also predicted. Methanogenic archaea that produce methane during organic matter decomposition and methanotrophic bacteria that utilize methane as carbon and energy sources co-exist in the cryoconite, suggesting that these niches support the complete cycling of methane. Additionally, the presence of various microfauna suggests the existence of a complex food web. Collectively, these results indicate that cryoconite holes are self-sustaining ecosystems that drive elemental cycles on glaciers and potentially control carbon, nitrogen, sulfur, and iron exports downstream.
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Affiliation(s)
- Runa Antony
- National Centre for Polar and Ocean Research, Ministry of Earth Sciences, Vasco-da-Gama, India; GFZ German Research Centre for Geosciences, Potsdam, Germany.
| | - Dattatray Mongad
- National Centre for Microbial Resource, National Centre for Cell Science, Pune, India
| | - Aritri Sanyal
- National Centre for Polar and Ocean Research, Ministry of Earth Sciences, Vasco-da-Gama, India
| | - Dhiraj Dhotre
- National Centre for Microbial Resource, National Centre for Cell Science, Pune, India
| | - Meloth Thamban
- National Centre for Polar and Ocean Research, Ministry of Earth Sciences, Vasco-da-Gama, India
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Marchetti A, Kupka D, Senatore VG, Bártová Z, Branduardi P, Hagarová L, Hredzák S, Lotti M. Iron bioleaching and polymers accumulation by an extreme acidophilic bacterium. Arch Microbiol 2024; 206:275. [PMID: 38775940 PMCID: PMC11111502 DOI: 10.1007/s00203-024-04005-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Accepted: 05/14/2024] [Indexed: 05/25/2024]
Abstract
In many European regions, both local metallic and non-metallic raw materials are poorly exploited due to their low quality and the lack of technologies to increase their economic value. In this context, the development of low cost and eco-friendly approaches, such as bioleaching of metal impurities, is crucial. The acidophilic strain Acidiphilium sp. SJH reduces Fe(III) to Fe(II) by coupling the oxidation of an organic substrate to the reduction of Fe(III) and can therefore be applied in the bioleaching of iron impurities from non-metallic raw materials. In this work, the physiology of Acidiphilium sp. SJH and the reduction of iron impurities from quartz sand and its derivatives have been studied during growth on media supplemented with various carbon sources and under different oxygenation conditions, highlighting that cell physiology and iron reduction are tightly coupled. Although the organism is known to be aerobic, maximum bioleaching performance was obtained by cultures cultivated until the exponential phase of growth under oxygen limitation. Among carbon sources, glucose has been shown to support faster biomass growth, while galactose allowed highest bioleaching. Moreover, Acidiphilium sp. SJH cells can synthesise and accumulate Poly-β-hydroxybutyrate (PHB) during the process, a polymer with relevant application in biotechnology. In summary, this work gives an insight into the physiology of Acidiphilium sp. SJH, able to use different carbon sources and to synthesise a technologically relevant polymer (PHB), while removing metals from sand without the need to introduce modifications in the process set up.
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Affiliation(s)
- Alessandro Marchetti
- Department of Biotechnology and Biosciences, State University of Milano-Bicocca, Milano, Italy
| | - Daniel Kupka
- Institute of Geotechnics of the Slovak Academy of Sciences, Watsonova 45, Kosice, 040 01, Slovakia
| | | | - Zuzana Bártová
- Institute of Geotechnics of the Slovak Academy of Sciences, Watsonova 45, Kosice, 040 01, Slovakia
| | - Paola Branduardi
- Department of Biotechnology and Biosciences, State University of Milano-Bicocca, Milano, Italy
| | - Lenka Hagarová
- Institute of Geotechnics of the Slovak Academy of Sciences, Watsonova 45, Kosice, 040 01, Slovakia
| | - Slavomír Hredzák
- Institute of Geotechnics of the Slovak Academy of Sciences, Watsonova 45, Kosice, 040 01, Slovakia
| | - Marina Lotti
- Department of Biotechnology and Biosciences, State University of Milano-Bicocca, Milano, Italy.
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Cuevas M, Francisco I, Díaz-González F, Diaz M, Quatrini R, Beamud G, Pedrozo F, Temporetti P. Nutrient structure dynamics and microbial communities at the water-sediment interface in an extremely acidic lake in northern Patagonia. Front Microbiol 2024; 15:1335978. [PMID: 38410393 PMCID: PMC10895001 DOI: 10.3389/fmicb.2024.1335978] [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: 11/09/2023] [Accepted: 01/23/2024] [Indexed: 02/28/2024] Open
Abstract
Lake Caviahue (37° 50 'S and 71° 06' W; Patagonia, Argentina) is an extreme case of a glacial, naturally acidic, aquatic environment (pH ~ 3). Knowledge of the bacterial communities in the water column of this lake, is incipient, with a basal quantification of the bacterioplankton abundance distribution in the North and South Basins of Lake Caviahue, and the described the presence of sulfur and iron oxidizing bacteria in the lake sediments. The role that bacterioplankton plays in nutrient utilization and recycling in this environment, especially in the phosphorus cycle, has not been studied. In this work, we explore this aspect in further depth by assessing the diversity of pelagic, littoral and sediment bacteria, using state of the art molecular methods and identifying the differences and commonalties in the composition of the cognate communities. Also, we investigate the interactions between the sediments of Lake Caviahue and the microbial communities present in both sediments, pore water and the water column, to comprehend the ecological relationships driving nutrient structure and fluxes, with a special focus on carbon, nitrogen, and phosphorus. Two major environmental patterns were observed: (a) one distinguishing the surface water samples due to temperature, Fe2+, and electrical conductivity, and (b) another distinguishing winter and summer samples due to the high pH and increasing concentrations of N-NH4+, DOC and SO42-, from autumn and spring samples with high soluble reactive phosphorus (SRP) and iron concentrations. The largest bacterial abundance was found in autumn, alongside higher levels of dissolved phosphorus, iron forms, and increased conductivity. The highest values of bacterial biomass were found in the bottom strata of the lake, which is also where the greatest diversity in microbial communities was found. The experiments using continuous flow column microcosms showed that microbial growth over time, in both the test and control columns, was accompanied by a decrease in the concentration of dissolved nutrients (SRP and N-NH4+), providing proof that sediment microorganisms are active and contribute significantly to nutrient utilization/mobilization.
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Affiliation(s)
- Mayra Cuevas
- Instituto de Investigaciones en Biodiversidad y Medioambiente (INIBIOMA), Centro Regional Universitario Bariloche-UNComahue, CCT-Patagonia Norte, CONICET, San Carlos de Bariloche, Argentina
| | - Issotta Francisco
- Centro Científico y Tecnológico de Excelencia Ciencia & Vida, Fundación Ciencia & Vida, Santiago, Chile
- Department of Molecular Genetics and Microbiology, School of Biological Sciences, P. Universidad Católica de Chile, Santiago, Chile
| | - Fernando Díaz-González
- Centro Científico y Tecnológico de Excelencia Ciencia & Vida, Fundación Ciencia & Vida, Santiago, Chile
- Facultad de Medicina y Ciencia, Universidad San Sebastián, Santiago, Chile
| | - Mónica Diaz
- Instituto de Investigaciones en Biodiversidad y Medioambiente (INIBIOMA), Centro Regional Universitario Bariloche-UNComahue, CCT-Patagonia Norte, CONICET, San Carlos de Bariloche, Argentina
| | - Raquel Quatrini
- Centro Científico y Tecnológico de Excelencia Ciencia & Vida, Fundación Ciencia & Vida, Santiago, Chile
- Facultad de Medicina y Ciencia, Universidad San Sebastián, Santiago, Chile
| | - Guadalupe Beamud
- Instituto de Investigaciones en Biodiversidad y Medioambiente (INIBIOMA), Centro Regional Universitario Bariloche-UNComahue, CCT-Patagonia Norte, CONICET, San Carlos de Bariloche, Argentina
| | - Fernando Pedrozo
- Instituto de Investigaciones en Biodiversidad y Medioambiente (INIBIOMA), Centro Regional Universitario Bariloche-UNComahue, CCT-Patagonia Norte, CONICET, San Carlos de Bariloche, Argentina
| | - Pedro Temporetti
- Instituto de Investigaciones en Biodiversidad y Medioambiente (INIBIOMA), Centro Regional Universitario Bariloche-UNComahue, CCT-Patagonia Norte, CONICET, San Carlos de Bariloche, Argentina
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Huo X, Liu J, Hong X, Bai H, Chen Z, Che J, Yang H, Tong Y, Feng S. Enhancing column bioleaching of chalcocite by isolated iron metabolism partners Leptospirillum ferriphilum/Acidiphilium sp. coupling with systematically utilizing cellulosic waste. BIORESOURCE TECHNOLOGY 2024; 394:130193. [PMID: 38081468 DOI: 10.1016/j.biortech.2023.130193] [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: 11/10/2023] [Revised: 12/08/2023] [Accepted: 12/08/2023] [Indexed: 02/04/2024]
Abstract
The iron metabolism partners Leptospirillum ferriphilum and Acidiphilium sp. were screened from industrial bioheap site. An integrated multi-stage strategy was proposed to improve chalcolite column bioleaching coupling with synergistical utilization of cellulosic waste such as acid hydrolysate of aquatic plants. L. ferriphilum was used to accelerate the initial iron metabolism, and Acidithiobacillus caldus maintained a lower pH in the middle stage, while Acidiphilium sp. greatly inhibited jarosite passivation in the later stage. Meanwhile, L. ferriphilum (38.3 %) and Acidiphilium sp. (37.0 %) dominated the middle stage, while the abundance of Acidiphilium sp. reached 63.5 % in the later stage. The ferrous, sulfate ion and biomass were improved and the transcriptional levels of some biofilm and morphology related genes were significantly up-regulated. The final Cu2+ concentration reached 325.5 mg·L-1, improved by 43.8 %. Moreover, Canonical Correlation Analysis (CCA) analysis between bioleaching performance, iron/sulfur metabolism and community verified the important role of iron metabolism partners.
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Affiliation(s)
- Xingyu Huo
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Jianna Liu
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Xianjing Hong
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Haochen Bai
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Zongling Chen
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Jinming Che
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Hailin Yang
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Yanjun Tong
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China
| | - Shoushuai Feng
- Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, China.
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Wang L, Wang J, Yuan J, Tang Z, Wang J, Zhang Y. Long-Term Organic Fertilization Strengthens the Soil Phosphorus Cycle and Phosphorus Availability by Regulating the pqqC- and phoD-Harboring Bacterial Communities. MICROBIAL ECOLOGY 2023; 86:2716-2732. [PMID: 37528183 DOI: 10.1007/s00248-023-02279-7] [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: 04/23/2023] [Accepted: 07/26/2023] [Indexed: 08/03/2023]
Abstract
The pqqC and phoD genes encode pyrroloquinoline quinone synthase and alkaline phosphomonoesterase (ALP), respectively. These genes play a crucial role in regulating the solubilization of inorganic phosphorus (Pi) and the mineralization of organic phosphorus (Po), making them valuable markers for P-mobilizing bacterial. However, there is limited understanding of how the interplay between soil P-mobilizing bacterial communities and abiotic factors influences P transformation and availability in the context of long-term fertilization scenarios. We used real-time polymerase chain reaction and high-throughput sequencing to explore the characteristics of soil P-mobilizing bacterial communities and their relationships with key physicochemical properties and P fractions under long-term fertilization scenarios. In a 38-year fertilization experiment, six fertilization treatments were selected. These treatments were sorted into three groups: the non-P-amended group, including no fertilization and mineral NK fertilizer; the sole mineral-P-amended group, including mineral NP and NPK fertilizer; and the organically amended group, including sole organic fertilizer and organic fertilizer plus mineral NPK fertilizer. The organically amended group significantly increased soil labile P (Ca2-P and enzyme-P) and Olsen-P content and proportion but decreased non-labile P (Ca10-P) proportion compared with the sole mineral-P-amended group, indicating enhanced P availability in the soil. Meanwhile, the organically amended group significantly increased soil ALP activity and pqqC and phoD gene abundances, indicating that organic fertilization promotes the activity and abundance of microorganisms involved in P mobilization processes. Interestingly, the organically amended group dramatically reshaped the community structure of P-mobilizing bacteria and increased the relative abundance of Acidiphilium, Panacagrimonas, Hansschlegelia, and Beijerinckia. These changes had a greater positive impact on ALP activity, labile P, and Olsen-P content compared to the abundance of P-mobilizing genes alone, indicating their importance in driving P mobilization processes. Structural equation modeling indicated that soil organic carbon and Po modulated the relationship between P-mobilizing bacterial communities and labile P and Olsen-P, highlighting the influence of SOC and Po on the functioning of P-mobilizing bacteria and their impact on P availability. Overall, our study demonstrates that organic fertilization has the potential to reshape the structure of P-mobilizing bacterial communities, leading to increased P mobilization and availability in the soil. These findings contribute to our understanding of the mechanisms underlying P cycling in agricultural systems and provide valuable insights for enhancing microbial P mobilization through organic fertilization.
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Affiliation(s)
- Lei Wang
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences/National Agricultural Experimental Station for Agricultural Environment, Luhe, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China
| | - Jing Wang
- Xuzhou Institute of Agricultural Sciences of Xuhuai District of Jiangsu Province, Xuzhou, 221131, China
| | - Jie Yuan
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences/National Agricultural Experimental Station for Agricultural Environment, Luhe, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China
| | - Zhonghou Tang
- Xuzhou Institute of Agricultural Sciences of Xuhuai District of Jiangsu Province, Xuzhou, 221131, China
| | - Jidong Wang
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences/National Agricultural Experimental Station for Agricultural Environment, Luhe, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China.
| | - Yongchun Zhang
- Institute of Agricultural Resources and Environment, Jiangsu Academy of Agricultural Sciences/National Agricultural Experimental Station for Agricultural Environment, Luhe, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China.
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González E, Zuleta C, Zamora G, Maturana N, Ponce B, Rivero MV, Rodríguez A, Soto JP, Scott F, Díaz-Barrera Á. Production of poly (3-hydroxybutyrate) and extracellular polymeric substances from glycerol by the acidophile Acidiphilium cryptum. Extremophiles 2023; 27:30. [PMID: 37847335 DOI: 10.1007/s00792-023-01313-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 09/26/2023] [Indexed: 10/18/2023]
Abstract
Acidiphilium cryptum is an acidophilic, heterotrophic, and metallotolerant bacteria able to use dissolved oxygen or Fe(III) as an electron sink. The ability of this extremophile to accumulate poly(3-hydroxybutyrate) (PHB) and secrete extracellular polymeric substances (EPS) has also been reported. Hence, the aim of this work is to characterize the production of PHB and EPS by the wild strain DSM2389 using glycerol in shaken flasks and bioreactor. Results showed that maximum PHB accumulation (37-42% w/w) was obtained using glycerol concentrations of 9 and 15 g L-1, where maximum dry cell weight titers reached 3.6 and 3.9 g L-1, respectively. The culture in the bioreactor showed that PHB accumulation takes place under oxygen limitation, while the redox potential of the culture medium could be used for online monitoring of the PHB production. Recovered EPS was analyzed by Fourier-transform infrared spectroscopy and subjected to gas chromatography-mass spectrometry after cleavage and derivatization steps. These analyses showed the presence of sugars which were identified as mannose, rhamnose and glucose, in a proportion near to 3.2:2.3:1, respectively. Since glycerol had not been used in previous works, these findings suggest the potential of A. cryptum to produce biopolymers from this compound at a large scale with a low risk of microbial contamination due to the low pH of the fermentation process.
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Affiliation(s)
- Ernesto González
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile.
- Department of Chemical and Materials Engineering, Faculty of Chemistry, Universidad Complutense de Madrid, Avda. Complutense s/n, 28040, Madrid, Spain.
| | - Camila Zuleta
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile
| | - Guiselle Zamora
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile
| | - Nataly Maturana
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile
| | - Belén Ponce
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile
| | - María Virginia Rivero
- Polymer Biotechnology Lab, Centro de Investigaciones Biológicas Margarita Salas (CIB-CSIC), Ramiro de Maeztu 9, 28040, Madrid, Spain
- Interdisciplinary Platform for Sustainable Plastics Towards a Circular Economy-Spanish National Research Council (SusPlast-CSIC), Madrid, Spain
| | - Alberto Rodríguez
- Polymer Biotechnology Lab, Centro de Investigaciones Biológicas Margarita Salas (CIB-CSIC), Ramiro de Maeztu 9, 28040, Madrid, Spain
- Interdisciplinary Platform for Sustainable Plastics Towards a Circular Economy-Spanish National Research Council (SusPlast-CSIC), Madrid, Spain
| | - Juan Pablo Soto
- Instituto de Química, Pontificia Universidad Católica de Valparaíso, Av. Universidad 330, Curauma, Valparaíso, Chile
| | - Felipe Scott
- Green Technologies Research Group, Facultad de Ingeniería y Ciencias Aplicadas, Universidad de los Andes, Av. Mons. Álvaro del Portillo, Las Condes, 12455, Santiago, Chile
| | - Álvaro Díaz-Barrera
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Av. Brasil, 2085, Valparaíso, Chile
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Kumar Singh V, Manna S, Kumar Biswas J, Pugazhendhi A. Recovery of residual metals from jarosite waste using chemical and biochemical processes to achieve sustainability: A state-of-the-art review. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 343:118221. [PMID: 37245308 DOI: 10.1016/j.jenvman.2023.118221] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 02/08/2023] [Accepted: 05/19/2023] [Indexed: 05/30/2023]
Abstract
Jarosite is a residue that is generated as a by-product during zinc extraction, and it consists of various types of heavy metal (loid)s such as arsenic, cadmium, chromium, iron, lead, mercury and silver. Due to the huge jarosite turn-over rate, and less efficient and expensive residual metal extraction processes, the zinc-producing industries dispose this waste in landfills. However, the leachate generated from such landfills contains a high concentration of heavy metal (loid)s that could contaminate the nearby water resources and cause environmental concern and human health risk. Various thermo-chemical and biological processes have been developed for the recovery of heavy metals from such waste. In this review, we have discussed all those pyrometallurgical, hydrometallurgical, and biological. Those studies were critically reviewed and compared on the basis of their techno-economic differences. The review indicated that these processes have their own benefits and drawbacks such as overall yield, economic and technical constraints, and the need for more than one process to mobilize multiple metal ions from jarosite. Also, in this review, the residual metal extraction processes from jarosite waste have been linked with the relevant UN Sustainable Development Goals (SDGs), which can be useful for a better approach to sustainable development.
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Affiliation(s)
- Vishal Kumar Singh
- Sustainability Cluster, School of Engineering, University of Petroleum and Energy Studies, Dehradun, 248007, India
| | - Suvendu Manna
- Sustainability Cluster, School of Engineering, University of Petroleum and Energy Studies, Dehradun, 248007, India.
| | - Jayanta Kumar Biswas
- Department of Ecological Studies & International Centre for Ecological Engineering, University of Kalyani, Kalyani, Nadia, 741235, West Bengal, India
| | - Arivalagan Pugazhendhi
- School of Engineering, Lebanese American University, Byblos, Lebanon; Tecnologico de Monterrey, Centre of Bioengineering, NatProLab, Plant Innovation Lab, School of Engineering and Sciences, Queretaro 76130, Mexico.
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Hosseini-Giv N, Basas A, Hicks C, El-Omar E, El-Assaad F, Hosseini-Beheshti E. Bacterial extracellular vesicles and their novel therapeutic applications in health and cancer. Front Cell Infect Microbiol 2022; 12:962216. [PMID: 36439225 PMCID: PMC9691856 DOI: 10.3389/fcimb.2022.962216] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Accepted: 10/20/2022] [Indexed: 10/03/2023] Open
Abstract
Bacterial cells communicate with host cells and other bacteria through the release of membrane vesicles known as bacterial extracellular vesicles (BEV). BEV are established mediators of intracellular signaling, stress tolerance, horizontal gene transfer, immune stimulation and pathogenicity. Both Gram-positive and Gram-negative bacteria produce extracellular vesicles through different mechanisms based on cell structure. BEV contain and transfer different types of cargo such as nucleic acids, proteins and lipids, which are used to interact with and affect host cells such as cytotoxicity and immunomodulation. The role of these membranous microvesicles in host communication, intra- and inter-species cell interaction and signaling, and contribution to various diseases have been well demonstrated. Due to their structure, these vesicles can be easily engineered to be utilized for clinical application, as shown with its role in vaccine therapy, and could be used as a diagnostic and cancer drug delivery tool in the future. However, like other novel therapeutic approaches, further investigation and standardization is imperative for BEV to become a routine vector or a conventional treatment method.
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Affiliation(s)
- Niloufar Hosseini-Giv
- Department of Biology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad, Iran
| | - Alyza Basas
- UNSW Microbiome Research Centre, St George and Sutherland Clinical Campuses, School of Clinical Medicine, Faculty of Medicine and Health, University of New South Wales, Sydney, NSW, Australia
| | - Chloe Hicks
- UNSW Microbiome Research Centre, St George and Sutherland Clinical Campuses, School of Clinical Medicine, Faculty of Medicine and Health, University of New South Wales, Sydney, NSW, Australia
| | - Emad El-Omar
- UNSW Microbiome Research Centre, St George and Sutherland Clinical Campuses, School of Clinical Medicine, Faculty of Medicine and Health, University of New South Wales, Sydney, NSW, Australia
| | - Fatima El-Assaad
- UNSW Microbiome Research Centre, St George and Sutherland Clinical Campuses, School of Clinical Medicine, Faculty of Medicine and Health, University of New South Wales, Sydney, NSW, Australia
| | - Elham Hosseini-Beheshti
- School of Medical Sciences, Faculty of Medicine and Health, University of Sydney, Camperdown, NSW, Australia
- The Sydney Nano Institute, The University of Sydney, Sydney, NSW, Australia
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Sand W, Schippers A, Hedrich S, Vera M. Progress in bioleaching: fundamentals and mechanisms of microbial metal sulfide oxidation - part A. Appl Microbiol Biotechnol 2022; 106:6933-6952. [PMID: 36194263 PMCID: PMC9592645 DOI: 10.1007/s00253-022-12168-7] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Revised: 08/31/2022] [Accepted: 09/01/2022] [Indexed: 11/30/2022]
Abstract
Abstract Bioleaching of metal sulfides is performed by diverse microorganisms. The dissolution of metal sulfides occurs via two chemical pathways, either the thiosulfate or the polysulfide pathway. These are determined by the metal sulfides’ mineralogy and their acid solubility. The microbial cell enables metal sulfide dissolution via oxidation of iron(II) ions and inorganic sulfur compounds. Thereby, the metal sulfide attacking agents iron(III) ions and protons are generated. Cells are active either in a planktonic state or attached to the mineral surface, forming biofilms. This review, as an update of the previous one (Vera et al., 2013a), summarizes some recent discoveries relevant to bioleaching microorganisms, contributing to a better understanding of their lifestyle. These comprise phylogeny, chemical pathways, surface science, biochemistry of iron and sulfur metabolism, anaerobic metabolism, cell–cell communication, molecular biology, and biofilm lifestyle. Recent advances from genetic engineering applied to bioleaching microorganisms will allow in the future to better understand important aspects of their physiology, as well as to open new possibilities for synthetic biology applications of leaching microbial consortia. Key points • Leaching of metal sulfides is strongly enhanced by microorganisms • Biofilm formation and extracellular polymer production influences bioleaching • Cell interactions in mixed bioleaching cultures are key for process optimization
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Affiliation(s)
- Wolfgang Sand
- Institute of Biosciences, TU Bergakademie Freiberg, Freiberg, Germany. .,Faculty of Chemistry, University Duisburg-Essen, Essen, Germany.
| | - Axel Schippers
- Bundesanstalt für Geowissenschaften und Rohstoffe (BGR), Hannover, Germany
| | - Sabrina Hedrich
- Institute of Biosciences, TU Bergakademie Freiberg, Freiberg, Germany
| | - Mario Vera
- Instituto de Ingeniería Biológica y Médica, Escuelas de Ingeniería, Medicina y Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile. .,Departamento de Ingeniería Hidráulica y Ambiental, Escuela de Ingeniería, Pontificia Universidad Católica de Chile, Santiago, Chile.
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10
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Park S, Kim SH, Chung H, An J, Nam K. Effect of organic substrate and Fe oxides transformation on the mobility of arsenic by biotic reductive dissolution under repetitive redox conditions. CHEMOSPHERE 2022; 305:135431. [PMID: 35738406 DOI: 10.1016/j.chemosphere.2022.135431] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2022] [Revised: 06/14/2022] [Accepted: 06/18/2022] [Indexed: 06/15/2023]
Abstract
The mobility of arsenic (As) in soil is highly affected by the change in the form of iron oxides present in the soil, which has a strong correlation with the change in redox potential. In this study, the altered mobility of As under repetitive redox conditions and the effect of organic substrates (i.e., glucose) on such change during four anoxic-oxic cycles were studied. During the 1st anoxic period, 37.1% of soil As was released into the soil solution, but the As in the soil solution decreased to 25.2% after the 1st oxic period. Moreover, the As in the soil solution further decreased during the 2nd to 4th oxic periods, indicating further re-adsorption of aqueous As. The analysis of As speciation revealed that inorganic arsenate (As(V)) increased under the redox-oscillating conditions, probably due to the depletion of electron donors. When glucose was re-spiked at the beginning of the 4th cycle, aqueous As increased to 47.3% again in the anoxic period and decreased to 27.6% in the subsequent oxic period, indicating inhibition of As re-adsorption. During the same period, the amount of highly sorptive As(V) in the solution decreased sharply to less than 3.3%. The X-ray absorption near edge structure analysis with linear combination fitting confirmed that the transformation of Fe oxides to poorly crystalline structures such as ferrihydrite occurred during repetitive cycles. These results imply that the mobility of As can be increased in As-contaminated redox transition zones by the introduction of rainfall with labile organics or by the fluctuation of organic-rich groundwater.
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Affiliation(s)
- Sujin Park
- Department of Civil and Environmental Engineering, Seoul National University, Seoul, 08826, South Korea
| | - Sang Hyun Kim
- Department of Civil and Environmental Engineering, Seoul National University, Seoul, 08826, South Korea
| | - Hyeonyong Chung
- Department of Civil and Environmental Engineering, Seoul National University, Seoul, 08826, South Korea
| | - Jinsung An
- Department of Civil & Environmental Engineering, Hanyang University, Ansan 15588, South Korea
| | - Kyoungphile Nam
- Department of Civil and Environmental Engineering, Seoul National University, Seoul, 08826, South Korea.
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11
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Nixon SL, Bonsall E, Cockell CS. Limitations of microbial iron reduction under extreme conditions. FEMS Microbiol Rev 2022; 46:6645348. [PMID: 35849069 PMCID: PMC9629499 DOI: 10.1093/femsre/fuac033] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 06/23/2022] [Accepted: 07/15/2022] [Indexed: 01/09/2023] Open
Abstract
Microbial iron reduction is a widespread and ancient metabolism on Earth, and may plausibly support microbial life on Mars and beyond. Yet, the extreme limits of this metabolism are yet to be defined. To investigate this, we surveyed the recorded limits to microbial iron reduction in a wide range of characterized iron-reducing microorganisms (n = 141), with a focus on pH and temperature. We then calculated Gibbs free energy of common microbially mediated iron reduction reactions across the pH-temperature habitability space to identify thermodynamic limits. Comparing predicted and observed limits, we show that microbial iron reduction is generally reported at extremes of pH or temperature alone, but not when these extremes are combined (with the exception of a small number of acidophilic hyperthermophiles). These patterns leave thermodynamically favourable combinations of pH and temperature apparently unoccupied. The empty spaces could be explained by experimental bias, but they could also be explained by energetic and biochemical limits to iron reduction at combined extremes. Our data allow for a review of our current understanding of the limits to microbial iron reduction at extremes and provide a basis to test more general hypotheses about the extent to which biochemistry establishes the limits to life.
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Affiliation(s)
- Sophie L Nixon
- Corresponding author: Department of Earth and Environmental Sciences, Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK. E-mail:
| | - Emily Bonsall
- Biological and Environmental Sciences, University of Stirling, Stirling, FK9 4LA, United Kingdom
| | - Charles S Cockell
- UK Centre for Astrobiology, School of Physics and Astronomy, University of Edinburgh, Edinburgh, EH9 3FD, United Kingdom
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12
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Fungi Can Be More Effective than Bacteria for the Bioremediation of Marine Sediments Highly Contaminated with Heavy Metals. Microorganisms 2022; 10:microorganisms10050993. [PMID: 35630436 PMCID: PMC9145406 DOI: 10.3390/microorganisms10050993] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Revised: 05/03/2022] [Accepted: 05/07/2022] [Indexed: 11/16/2022] Open
Abstract
The contamination of coastal marine sediments with heavy metals (HMs) is a widespread phenomenon that requires effective remediation actions. Bioremediation based on the use of bacteria is an economically and environmentally sustainable effective strategy for reducing HM contamination and/or toxicity in marine sediments. However, information on the efficiency of marine-derived fungi for HM decontamination of marine sediments is still largely lacking, despite evidence of the performance of terrestrial fungal strains on other contaminated matrixes (e.g., soils, freshwater sediments, industrial wastes). Here, we carried out for the first time an array of parallel laboratory experiments by using different combinations of chemical and microbial amendments (including acidophilic autotrophic and heterotrophic bacteria, as well as filamentous marine fungi) for the bioremediation of highly HM-contaminated sediments of the Portman Bay (NW Mediterranean Sea), an area largely affected by long-term historical discharges of mine tailings. Our results indicate that the bioleaching performance of metals from the sediment is based on the addition of fungi (Aspergillus niger and Trichoderma sp.), either alone or in combination with autotrophic bacteria, was higher when compared to other treatments. In particular, fungal addition allowed obtaining bioleaching yields for As eight times higher than those by chemical treatments and double compared with the addition of bacteria alone. Moreover, in our study, the fungal addition was the only treatment allowing effective bioleaching of otherwise not mobile fractions of Zn and Cd, thus overtaking bacterial treatments. We found that the lower the sediment pH reached by the experimental conditions, as in the case of fungal addition, the higher the solubilization yield of metals, suggesting that the specific metabolic features of A. niger and Trichoderma sp. enable lowering sediment pH and enhance HM bioleaching. Overall, our findings indicate that fungi can be more effective than acidophilic autotrophic and heterotrophic bacteria in HM bioleaching, and as such, their use can represent a promising and efficient strategy for the bioremediation of marine sediments highly contaminated with heavy metals.
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13
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Biogeochemical Niches of Fe-cycling Communities Influencing Heavy Metal Transport Along the Rio Tinto, Spain. Appl Environ Microbiol 2021; 88:e0229021. [PMID: 34910570 DOI: 10.1128/aem.02290-21] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
In the mining-impacted Rio Tinto, Spain, Fe-cycling microorganisms influence the transport of heavy metals (HMs) into the Atlantic Ocean. However, it remains largely unknown how spatial and temporal hydrogeochemical gradients along the Rio Tinto shape the composition of Fe-cycling microbial communities and how this in turn affects HM mobility. Using a combination of DNA- and RNA-based 16S rRNA (gene) amplicon sequencing and hydrogeochemical analyses, we explored the impact of pH, Fe(III), Fe(II) and Cl- on Fe-cycling microorganisms. We showed that the water column at the acidic (pH 2.2) middle course of the river was colonized by Fe(II) oxidizers affiliating with Acidithiobacillus and Leptospirillum. At the upper estuary, daily fluctuations of pH (2.7-3.7) and Cl- (6.9-16.6 g/L) contributed to the establishment of a unique microbial community, including Fe(II) oxidizers belonging to Acidihalobacter, Marinobacter and Mariprofundus identified at this site. Furthermore, DNA- and RNA-based profiles of the benthic community suggested that acidophilic and neutrophilic Fe(II) oxidizers (e.g., Acidihalobacter, Marinobacter and Mariprofundus), Fe(III) reducers (e.g., Thermoanaerobaculum) and sulfate-reducing bacteria drive the Fe cycle in the estuarine sediments. RNA-based relative abundances of Leptospirillum at the middle course as well as abundances of Acidohalobacter and Mariprofundus at the upper estuary were higher, compared to DNA-based results, suggesting potentially higher level of activity of these taxa. Based on our findings, we propose a model of how tidal water affects the composition and activity of the Fe-cycling taxa, playing an important role in the transport of HMs (e.g., As, Cd, Cr and Pb) along the Rio Tinto. Importance The estuary of the Rio Tinto is a unique environment in which extremely acidic, heavy metal- and especially iron-rich river water is mixed with seawater. Due to the mixing events, the estuarine water is characterized by a low pH, almost sea water salinity and high concentrations of bioavailable iron. The unusual hydrogeochemistry maintains unique microbial communities in the estuarine water and in the sediment. These communities include halotolerant iron-oxidizing microorganisms which typically inhabit acidic saline environments and marine iron-oxidizing microorganisms, which, in opposite, are not typically found in acidic environments. Furthermore, highly saline estuarine water favored the prosperity of acidophilic heterotrophs, typically inhabiting brackish and saline environments. The Rio Tinto estuarine sediment harbored a diverse microbial community with both, acidophilic and neutrophilic members that can mediate the iron cycle, and in turn, can directly impact the mobility and transport of heavy metals in the Rio Tinto estuary.
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14
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Bellenberg S, Turner S, Seidel L, van Wyk N, Zhang R, Sachpazidou V, Embile RF, Walder I, Leiviskä T, Dopson M. Towards Bioleaching of a Vanadium Containing Magnetite for Metal Recovery. Front Microbiol 2021; 12:693615. [PMID: 34276626 PMCID: PMC8278310 DOI: 10.3389/fmicb.2021.693615] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Accepted: 05/24/2021] [Indexed: 01/04/2023] Open
Abstract
Vanadium - a transition metal - is found in the ferrous-ferric mineral, magnetite. Vanadium has many industrial applications, such as in the production of high-strength low-alloy steels, and its increasing global industrial consumption requires new primary sources. Bioleaching is a biotechnological process for microbially catalyzed dissolution of minerals and wastes for metal recovery such as biogenic organic acid dissolution of bauxite residues. In this study, 16S rRNA gene amplicon sequencing was used to identify microorganisms in Nordic mining environments influenced by vanadium containing sources. These data identified gene sequences that aligned to the Gluconobacter genus that produce gluconic acid. Several strategies for magnetite dissolution were tested including oxidative and reductive bioleaching by acidophilic microbes along with dissimilatory reduction by Shewanella spp. that did not yield significant metal release. In addition, abiotic dissolution of the magnetite was tested with gluconic and oxalic acids, and yielded 3.99 and 81.31% iron release as a proxy for vanadium release, respectively. As a proof of principle, leaching via gluconic acid production by Gluconobacter oxydans resulted in a maximum yield of 9.8% of the available iron and 3.3% of the vanadium. Addition of an increased concentration of glucose as electron donor for gluconic acid production alone, or in combination with calcium carbonate to buffer the pH, increased the rate of iron dissolution and final vanadium recoveries. These data suggest a strategy of biogenic organic acid mediated vanadium recovery from magnetite and point the way to testing additional microbial species to optimize the recovery.
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Affiliation(s)
- Sören Bellenberg
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
| | - Stephanie Turner
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
| | - Laura Seidel
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
| | - Nathan van Wyk
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
| | - Ruichi Zhang
- Chemical Process Engineering, University of Oulu, Oulu, Finland
| | - Varvara Sachpazidou
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
| | | | - Ingar Walder
- Kjeøy Research & Education Center, Vestbygd, Norway
| | - Tiina Leiviskä
- Chemical Process Engineering, University of Oulu, Oulu, Finland
| | - Mark Dopson
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, Kalmar, Sweden
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15
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Insights into Autotrophic Activities and Carbon Flow in Iron-Rich Pelagic Aggregates (Iron Snow). Microorganisms 2021; 9:microorganisms9071368. [PMID: 34201891 PMCID: PMC8305228 DOI: 10.3390/microorganisms9071368] [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: 05/06/2021] [Revised: 06/18/2021] [Accepted: 06/21/2021] [Indexed: 11/17/2022] Open
Abstract
Pelagic aggregates function as biological carbon pumps for transporting fixed organic carbon to sediments. In iron-rich (ferruginous) lakes, photoferrotrophic and chemolithoautotrophic bacteria contribute to CO2 fixation by oxidizing reduced iron, leading to the formation of iron-rich pelagic aggregates (iron snow). The significance of iron oxidizers in carbon fixation, their general role in iron snow functioning and the flow of carbon within iron snow is still unclear. Here, we combined a two-year metatranscriptome analysis of iron snow collected from an acidic lake with protein-based stable isotope probing to determine general metabolic activities and to trace 13CO2 incorporation in iron snow over time under oxic and anoxic conditions. mRNA-derived metatranscriptome of iron snow identified four key players (Leptospirillum, Ferrovum, Acidithrix, Acidiphilium) with relative abundances (59.6-85.7%) encoding ecologically relevant pathways, including carbon fixation and polysaccharide biosynthesis. No transcriptional activity for carbon fixation from archaea or eukaryotes was detected. 13CO2 incorporation studies identified active chemolithoautotroph Ferrovum under both conditions. Only 1.0-5.3% relative 13C abundances were found in heterotrophic Acidiphilium and Acidocella under oxic conditions. These data show that iron oxidizers play an important role in CO2 fixation, but the majority of fixed C will be directly transported to the sediment without feeding heterotrophs in the water column in acidic ferruginous lakes.
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16
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Jin D, Wang X, Liu L, Liang J, Zhou L. A novel approach for treating acid mine drainage through forming schwertmannite driven by a mixed culture of Acidiphilium multivorum and Acidithiobacillus ferrooxidans prior to lime neutralization. JOURNAL OF HAZARDOUS MATERIALS 2020; 400:123108. [PMID: 32593016 DOI: 10.1016/j.jhazmat.2020.123108] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2020] [Revised: 06/01/2020] [Accepted: 06/02/2020] [Indexed: 06/11/2023]
Abstract
As the predominant treatment approach of acid mine drainage (AMD), lime neutralization often exhibits inefficiencies since the abundance of iron and sulfate in AMD usually form iron hydroxide and gypsum precipitate coatings on the surface of lime. In this study, a novel approach of biomineralization prior to lime neutralization for treating AMD was proposed, in which iron and sulfate were biologically precipitated as schwertmannite through iron biological reduction-oxidation driven by a culture mixed with Acidiphilium multivorum JZ-6 and Acidithiobacillus ferrooxidans LX5. It was found that only five cycles of iron reduction by A. multivorum JZ-6 followed by iron oxidation by A. ferrooxidans LX5 could remove completely iron and nearly 40% of sulfate in AMD, while non-ferrous metals (Al, Mn, Cu, Ni, and Zn) were hardly removed. Consequently, the amounts of lime required and sludge generated in the subsequent lime neutralization process were reduced by 56% and 68%, respectively. As a result, the content of non-ferrous metals in the sludge was increased by 3.2 folds. The level of Al was increased surprisingly to 19% (wt/wt), a level similar to the commercially valuable bauxite. The novel process of biomineralization prior to lime neutralization provides a sustainable way for AMD treatment.
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Affiliation(s)
- Decheng Jin
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiaomeng Wang
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Lanlan Liu
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Jianru Liang
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China
| | - Lixiang Zhou
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China.
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17
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Li L, Liu Z, Zhang M, Meng D, Liu X, Wang P, Li X, Jiang Z, Zhong S, Jiang C, Yin H. Insights into the Metabolism and Evolution of the Genus Acidiphilium, a Typical Acidophile in Acid Mine Drainage. mSystems 2020; 5:e00867-20. [PMID: 33203689 PMCID: PMC7677001 DOI: 10.1128/msystems.00867-20] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Accepted: 10/28/2020] [Indexed: 01/05/2023] Open
Abstract
Here, we report three new Acidiphilium genomes, reclassified existing Acidiphilium species, and performed the first comparative genomic analysis on Acidiphilium in an attempt to address the metabolic potential, ecological functions, and evolutionary history of the genus Acidiphilium In the genomes of Acidiphilium, we found an abundant repertoire of horizontally transferred genes (HTGs) contributing to environmental adaption and metabolic expansion, including genes conferring photosynthesis (puf, puh), CO2 assimilation (rbc), capacity for methane metabolism (mmo, mdh, frm), nitrogen source utilization (nar, cyn, hmp), sulfur compound utilization (sox, psr, sqr), and multiple metal and osmotic stress resistance capacities (czc, cop, ect). Additionally, the predicted donors of horizontal gene transfer were present in a cooccurrence network of Acidiphilium Genome-scale positive selection analysis revealed that 15 genes contained adaptive mutations, most of which were multifunctional and played critical roles in the survival of extreme conditions. We proposed that Acidiphilium originated in mild conditions and adapted to extreme environments such as acidic mineral sites after the acquisition of many essential functions.IMPORTANCE Extremophiles, organisms that thrive in extreme environments, are key models for research on biological adaption. They can provide hints for the origin and evolution of life, as well as improve the understanding of biogeochemical cycling of elements. Extremely acidophilic bacteria such as Acidiphilium are widespread in acid mine drainage (AMD) systems, but the metabolic potential, ecological functions, and evolutionary history of this genus are still ambiguous. Here, we sequenced the genomes of three new Acidiphilium strains and performed comparative genomic analysis on this extremely acidophilic bacterial genus. We found in the genomes of Acidiphilium an abundant repertoire of horizontally transferred genes (HTGs) contributing to environmental adaption and metabolic ability expansion, as indicated by phylogenetic reconstruction and gene context comparison. This study has advanced our understanding of microbial evolution and biogeochemical cycling in extreme niches.
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Affiliation(s)
- Liangzhi Li
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
| | - Zhenghua Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
| | - Min Zhang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
| | - Delong Meng
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
| | - Pei Wang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Xiutong Li
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Zhen Jiang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Shuiping Zhong
- College of Zijin Mining, Fuzhou University, Fuzhou, China
- National Key Laboratory of Comprehensive Utilization of Low-Grade Refractory Gold Ores, Shanghang, China
| | - Chengying Jiang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
| | - Huaqun Yin
- School of Minerals Processing and Bioengineering, Central South University, Changsha, China
- Key Laboratory of Biometallurgy of Ministry of Education, Central South University, Changsha, China
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18
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Abramov SM, Tejada J, Grimm L, Schädler F, Bulaev A, Tomaszewski EJ, Byrne JM, Straub D, Thorwarth H, Amils R, Kleindienst S, Kappler A. Role of biogenic Fe(III) minerals as a sink and carrier of heavy metals in the Rio Tinto, Spain. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 718:137294. [PMID: 32097837 DOI: 10.1016/j.scitotenv.2020.137294] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Revised: 02/11/2020] [Accepted: 02/11/2020] [Indexed: 06/10/2023]
Abstract
Oxidation of sulfide ores in the Iberian Pyrite Belt region leads to the presence of extremely high concentration of dissolved heavy metals (HMs) in the acidic water of the Rio Tinto. Fe(II) is microbially oxidized resulting in the formation of suspended particulate matter (SPM) consisting of microbial cells and Fe(III) minerals with co-precipitated HMs. Although substantial amount of HM-bearing SPM is likely deposited to river sediment, a portion can still be transported through estuary to the coastal ocean. Therefore, the mechanisms of SPM formation and transport along the Rio Tinto are important for coastal-estuarine zone. In order to reveal these mechanisms, we performed diurnal sampling of Rio Tinto water, mineralogical and elemental analysis of sediment from the middle course and the estuary of the river. We identified two divergent but interrelated pathways of HM transfer. The first longitudinal pathway is the transport of SPM-associated metals such as As (6.58 μg/L), Pb (3.51 μg/L) and Cr (1.30 μg/L) to the coastal ocean. The second sedimentation pathway contributes to the continuous burial of HMs in the sediment throughout the river. In the middle course, sediment undergoes mineralogical transformations during early diagenesis and traps HMs (e.g. 1.6 mg/g of As, 1.23 mg/g of Pb and 0.1 mg/g of Cr). In the estuary, HMs are accumulated in a distinct anoxic layer of sediment (e.g. 1.5 mg/g of As, 2.09 mg/g of Pb and 0.04 mg/g of Cr). Our results indicate that microbially precipitated Fe(III) minerals (identified as ferrihydrite and schwertmannite) play a key role in maintaining these divergent HM pathways and as a consequence are crucial for HM mobility in the Rio Tinto.
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Affiliation(s)
- Sergey M Abramov
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany; Microbial Ecology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany.
| | - Julian Tejada
- University of Applied Forest Sciences Rottenburg, Schadenweilerhof, D-72108 Rottenburg am Neckar, Germany
| | - Lars Grimm
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany
| | - Franziska Schädler
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany; Microbial Ecology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany
| | - Aleksandr Bulaev
- Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, Leninsky Ave. 33, Bld 2, 119071 Moscow, Russia
| | - Elizabeth J Tomaszewski
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany; Plant and Soil Sciences 250A Harker ISE Lab, University of Delaware Newark, DE 19716, USA
| | - James M Byrne
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany
| | - Daniel Straub
- Microbial Ecology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany; Quantitative Biology Center (QBiC), University of Tuebingen, Auf der Morgenstelle 10, 72076 Tuebingen, Germany
| | - Harald Thorwarth
- University of Applied Forest Sciences Rottenburg, Schadenweilerhof, D-72108 Rottenburg am Neckar, Germany
| | - Ricardo Amils
- Department of Virology and Microbiology, Centre for Molecular Biology "Severo Ochoa", Autonomous University of Madrid, Calle Nicolás Cabrera 1, Cantoblanco (Campus UAM), 28049 Madrid, Spain
| | - Sara Kleindienst
- Microbial Ecology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Center for Applied Geosciences, University of Tuebingen, Hölderlinstrasse 12, D-72074 Tuebingen, Germany
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19
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Molecular Mechanisms Underpinning Aggregation in Acidiphilium sp. C61 Isolated from Iron-Rich Pelagic Aggregates. Microorganisms 2020; 8:microorganisms8030314. [PMID: 32106516 PMCID: PMC7142476 DOI: 10.3390/microorganisms8030314] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2019] [Revised: 02/21/2020] [Accepted: 02/23/2020] [Indexed: 12/04/2022] Open
Abstract
Iron-rich pelagic aggregates (iron snow) are hot spots for microbial interactions. Using iron snow isolates, we previously demonstrated that the iron-oxidizer Acidithrix sp. C25 triggers Acidiphilium sp. C61 aggregation by producing the infochemical 2-phenethylamine (PEA). Here, we showed slightly enhanced aggregate formation in the presence of PEA on different Acidiphilium spp. but not other iron-snow microorganisms, including Acidocella sp. C78 and Ferrovum sp. PN-J47. Next, we sequenced the Acidiphilium sp. C61 genome to reconstruct its metabolic potential. Pangenome analyses of Acidiphilium spp. genomes revealed the core genome contained 65 gene clusters associated with aggregation, including autoaggregation, motility, and biofilm formation. Screening the Acidiphilium sp. C61 genome revealed the presence of autotransporter, flagellar, and extracellular polymeric substances (EPS) production genes. RNA-seq analyses of Acidiphilium sp. C61 incubations (+/− 10 µM PEA) indicated genes involved in energy production, respiration, and genetic processing were the most upregulated differentially expressed genes in the presence of PEA. Additionally, genes involved in flagellar basal body synthesis were highly upregulated, whereas the expression pattern of biofilm formation-related genes was inconclusive. Our data shows aggregation is a common trait among Acidiphilium spp. and PEA stimulates the central cellular metabolism, potentially advantageous in aggregates rapidly falling through the water column.
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20
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Thakur N, Sharma N, Kumar V, Bhalla TC. Computational Analysis of the Primary and Secondary Structure of Amidases in Relation to their pH Adaptation. CURR PROTEOMICS 2020. [DOI: 10.2174/1570164616666190718150627] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Background:
Amidases are ubiquitous enzymes and biological functions of these enzymes
vary widely. They are considered to be synergistically involved in the synthesis of a wide variety of
carboxylic acids, hydroxamic acids and hydrazides, which find applications in commodity chemicals
synthesis, pharmaceuticals agrochemicals and wastewater treatments.
Methods:
They hydrolyse a wide variety of amides (short-chain aliphatic amides, mid-chain amides,
arylamides, α-aminoamides and α-hydroxyamides) and can be grouped on the basis of their catalytic
site and preferred substrate. Despite their economic importance, we lack knowledge as to how these
amidases withstand elevated pH and temperature whereas others cannot.
Results:
The present study focuses on the statistical comparison between the acid-tolerant, alkali tolerant
and neutrophilic organisms. In silico analysis of amidases of acid-tolerant, alkali tolerant and neutrophilic
organisms revealed some striking trends as to how amino acid composition varies significantly.
Statistical analysis of primary and secondary structure revealed amino acid trends in amidases of
these three groups of bacteria. The abundance of isoleucine (Ile, I) in acid-tolerant and leucine (Leu, L)
in alkali tolerant showed the aliphatic amino acid dominance in extreme conditions of pH in acidtolerant
and alkali tolerant amidases.
Conclusion:
The present investigation insights physiochemical properties and dominance of some crucial
amino acid residues in the primary and secondary structure of some amidases from acid-tolerant,
alkali tolerant and neutrophilic microorganisms.
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Affiliation(s)
- Neerja Thakur
- Bioinformatics Centre, Himachal Pradesh University, Summer Hill, Shimla, Himachal Pradesh 171005, India
| | - Nikhil Sharma
- Bioinformatics Centre, Himachal Pradesh University, Summer Hill, Shimla, Himachal Pradesh 171005, India
| | - Vijay Kumar
- Department of Biotechnology, Himachal Pradesh University, Summer Hill, Shimla, Himachal Pradesh 171005, India
| | - Tek Chand Bhalla
- Department of Biotechnology, Himachal Pradesh University, Summer Hill, Shimla, Himachal Pradesh 171005, India
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Havig JR, Hamilton TL. Productivity and Community Composition of Low Biomass/High Silica Precipitation Hot Springs: A Possible Window to Earth's Early Biosphere? Life (Basel) 2019; 9:E64. [PMID: 31362401 PMCID: PMC6789502 DOI: 10.3390/life9030064] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Revised: 07/10/2019] [Accepted: 07/24/2019] [Indexed: 01/14/2023] Open
Abstract
Terrestrial hot springs have provided a niche space for microbial communities throughout much of Earth's history, and evidence for hydrothermal deposits on the Martian surface suggest this could have also been the case for the red planet. Prior to the evolution of photosynthesis, life in hot springs on early Earth would have been supported though chemoautotrophy. Today, hot spring geochemical and physical parameters can preclude the occurrence of oxygenic phototrophs, providing an opportunity to characterize the geochemical and microbial components. In the absence of the photo-oxidation of water, chemoautotrophy in these hot springs (and throughout Earth's history) relies on the delivery of exogenous electron acceptors and donors such as H2, H2S, and Fe2+. Thus, systems fueled by chemoautotrophy are likely energy substrate-limited and support low biomass communities compared to those where oxygenic phototrophs are prevalent. Low biomass silica-precipitating systems have implications for preservation, especially over geologic time. Here, we examine and compare the productivity and composition of low biomass chemoautotrophic versus photoautotrophic communities in silica-saturated hot springs. Our results indicate low biomass chemoautotrophic microbial communities in Yellowstone National Park are supported primarily by sulfur redox reactions and, while similar in total biomass, show higher diversity in anoxygenic phototrophic communities compared to chemoautotrophs. Our data suggest productivity in Archean terrestrial hot springs may be directly linked to redox substrate availability, and there may be high potential for geochemical and physical biosignature preservation from these communities.
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Affiliation(s)
- Jeff R Havig
- Department of Earth and Environmental Sciences, University of Minnesota, Minneapolis, MN 55455, USA.
| | - Trinity L Hamilton
- Department of Plant and Microbial Biology, University of Minnesota, St. Paul, MN 55108, USA
- BioTechnology Institute, University of Minnesota, St. Paul, MN 55108, USA
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22
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Wu Y, Luo J, Zhang Q, Aleem M, Fang F, Xue Z, Cao J. Potentials and challenges of phosphorus recovery as vivianite from wastewater: A review. CHEMOSPHERE 2019; 226:246-258. [PMID: 30933734 DOI: 10.1016/j.chemosphere.2019.03.138] [Citation(s) in RCA: 90] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/29/2018] [Revised: 03/20/2019] [Accepted: 03/21/2019] [Indexed: 06/09/2023]
Abstract
Due to the shortage of phosphorus resources and the limitations of existing phosphorus recovery methods, phosphorus recovery in the form of vivianite has attracted considerable attention with its natural ubiquity, easy accessibility and foreseeable economic value. This review systematically summarizes the chemistry of vivianite, including the characteristics, formation process and influencing factors of the material. Additionally, the potential of phosphorus recovery as vivianite from wastewater has also been comprehensively examined from the prospects of economic value and engineering feasibility. In general, this method is theoretically and practically feasible, and brings some extra benefits in WWTPs. However, the insufficient understanding on vivianite recovery in wastewater/sludge decelerate the development and exploration of such advanced approach. Further researches and cross-field supports would facilitate the improvement of this technique in the future.
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Affiliation(s)
- Yang Wu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
| | - Jingyang Luo
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China.
| | - Qin Zhang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China; Wanjiang University of Technology, Ma'anshan 243031, China
| | - Muhammad Aleem
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
| | - Fang Fang
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
| | - Zhaoxia Xue
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
| | - Jiashun Cao
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes, College of Environment, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China.
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Kaur S, Kurtz HD. Core bacterial community composition of a cryptoendolithic ecosystem in the Grand Staircase-Escalante National Monument, Utah. Microbiologyopen 2019; 8:e00707. [PMID: 30079546 PMCID: PMC6528646 DOI: 10.1002/mbo3.707] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2018] [Revised: 06/12/2018] [Accepted: 07/04/2018] [Indexed: 11/21/2022] Open
Abstract
Cryptoendolithic bacterial communities in the Jurassic Navajo Sandstones play an important ecological role in this ecosystem. Developing a better understanding of the role of these cryptoendolithic communities required a deeper knowledge of the microbial diversity present. We analyzed the bacterial diversity in eight sandstones samples from several microgeological features associated with a large sandstone dome. Cryptoendolithic bacterial diversity is clustered into three distinct groups which correlated with topography, suggesting the duration of water retention might be a factor. Comparisons of diversity between each cluster showed that a core bacterial community exists in this habitat. The overall bacterial community structure was dominated by Cyanobacteria, Proteobacteria, Bacteroidetes, and Actinobacteria. The most prevalent genera in cyanobacteria were Leptolyngbya, Chroococcidiopsis, and unclassified cyanobacteria accounting for the bulk of cyanobacterial sequences. Within the Proteobacteria, Alphaproteobacteria were the largest class detected, with members of the Acetobacteraceae, particularly the genus Acidiphilium, being the most abundant. Acidiphilium spp. are capable of aerobic ferric iron reduction under moderately acidic conditions, explaining the high levels of iron (II) in this system. This study highlights the extent of unexplored bacterial diversity in this habitat system and sets the premise for elaborating on the ecological function of cryptoendolithic communities.
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Affiliation(s)
- Sukhpreet Kaur
- Department of Biological SciencesClemson UniversityClemsonSouth Carolina
| | - HD Kurtz
- Department of Biological SciencesClemson UniversityClemsonSouth Carolina
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24
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An integrated microbiological and electrochemical approach to determine distributions of Fe metabolism in acid mine drainage-induced "iron mound" sediments. PLoS One 2019; 14:e0213807. [PMID: 30913215 PMCID: PMC6435174 DOI: 10.1371/journal.pone.0213807] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2018] [Accepted: 02/28/2019] [Indexed: 11/21/2022] Open
Abstract
Fe(III)-rich deposits referred to as “iron mounds” develop when Fe(II)-rich acid mine drainage (AMD) emerges at the terrestrial surface, and aeration of the fluids induces oxidation of Fe(II), with subsequent precipitation of Fe(III) phases. As Fe(III) phases accumulate in these systems, O2 gradients may develop in the sediments and influence the distributions and extents of aerobic and anaerobic microbiological Fe metabolism, and in turn the solubility of Fe. To determine how intrusion of O2 into iron mound sediments influences microbial community composition and Fe metabolism, we incubated samples of these sediments in a column format. O2 was only supplied through the top of the columns, and microbiological, geochemical, and electrochemical changes at discrete depths were determined with time. Despite the development of dramatic gradients in dissolved Fe(II) concentrations, indicating Fe(II) oxidation in shallower portions and Fe(III) reduction in the deeper portions, microbial communities varied little with depth, suggesting the metabolic versatility of organisms in the sediments with respect to Fe metabolism. Additionally, the availability of O2 in shallow portions of the sediments influenced Fe metabolism in deeper, O2-free sediments. Total potential (EH + self-potential) measurements at discrete depths in the columns indicated that Fe transformations and electron transfer processes were occurring through the sediments and could explain the impact of O2 on Fe metabolism past where it penetrates into the sediments. This work shows that O2 availability (or lack of it) minimally influences microbial communities, but influences microbial activities beyond its penetration depth in AMD-derived Fe(III) rich sediments. Our results indicate that O2 can modulate Fe redox state and solubility in larger volumes of iron mound sediments than only those directly exposed to O2.
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25
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Toyofuku M, Nomura N, Eberl L. Types and origins of bacterial membrane vesicles. Nat Rev Microbiol 2018; 17:13-24. [DOI: 10.1038/s41579-018-0112-2] [Citation(s) in RCA: 396] [Impact Index Per Article: 66.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
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26
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Hynek BM, Rogers KL, Antunovich M, Avard G, Alvarado GE. Lack of Microbial Diversity in an Extreme Mars Analog Setting: Poás Volcano, Costa Rica. ASTROBIOLOGY 2018; 18:923-933. [PMID: 29688767 PMCID: PMC6067093 DOI: 10.1089/ast.2017.1719] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
The Poás volcano in Costa Rica has been studied as a Mars geochemical analog environment, since both the style of hydrothermal alteration present and the alteration mineralogy are consistent with Mars' relict hydrothermal systems. The site hosts an active volcano, with high-temperature fumaroles (up to 980°C) and an ultra-acidic lake. This lake, Laguna Caliente, is one of the most dynamic environments on Earth, with frequent phreatic eruptions, temperatures ranging from near-ambient to almost boiling, a pH range of -1 to 1.5, and a wide range of chemistries and redox potential. Martian acid-sulfate hydrothermal systems were likely similarly dynamic and equally challenging to life. The microbiology existing within Laguna Caliente was characterized for the first time, with sampling taking place in November, 2013. The diversity of the microbial community was surveyed via extraction of environmental DNA from fluid and sediment samples followed by Illumina sequencing of the 16S rRNA gene. The microbial diversity was limited to a single species of the bacterial genus Acidiphilium. This organism likely gets its energy from oxidation of reduced sulfur in the lake, including elemental sulfur. Given Mars' propensity for sulfur and acid-sulfate environments, this type of organism is of significant interest to the search for past or present life on the Red Planet. Key Words: Mars astrobiology-Acid-sulfate hydrothermal systems-Extremophiles-Acidic-High temperature-Acidiphilium bacteria. Astrobiology 18, 923-933.
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Affiliation(s)
- Brian M. Hynek
- Laboratory for Atmospheric and Space Physics, University of Colorado, Boulder, Colorado, USA
- Department of Geological Sciences, University of Colorado, Boulder, Colorado, USA
- Address correspondence to:Brian M. HynekLaboratory for Atmospheric and Space PhysicsUniversity of Colorado3665 Discovery Dr.Boulder, CO 80303
| | - Karyn L. Rogers
- Earth and Environmental Sciences, Rensselaer Polytechnic Institute, Troy, New York, USA
| | - Monique Antunovich
- Department of Geological Sciences, University of Colorado, Boulder, Colorado, USA
| | - Geoffroy Avard
- OVSICORI, National University of Costa Rica, Heredia, Costa Rica
| | - Guillermo E. Alvarado
- Centro de Investigaciones Geológicas, Red Sismológica Nacional, Universidad de Costa Rica, Costa Rica
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Schoepfer VA, Burton ED, Johnston SG, Kraal P. Phosphate-Imposed Constraints on Schwertmannite Stability under Reducing Conditions. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:9739-9746. [PMID: 28766328 DOI: 10.1021/acs.est.7b02103] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Schwertmannite is a ferric oxyhydroxysulfate mineral, which is common in acid sulfate systems. Such systems contain varying concentrations of phosphate (PO43-)-an essential nutrient whose availability may be coupled to schwertmannite formation and fate. This study examines the effect of phosphate on schwertmannite stability under reducing conditions. Phosphate was added at 0, 80, 400, and 800 μmoles g-1 (i.e., zero, low, medium, and high loading) to schwertmannite suspensions which were inoculated with wetland sediment and suspended in N2-purged artificial groundwater. pH remained between 2.7 and 4.3 over the 41 day experiment duration. Fe(II) accumulated in solution due to dissimilatory Fe(III)-reduction, which was most pronounced at intermediate PO43- loadings (i.e., in the low PO43- treatment). Partial transformation of schwertmannite to goethite occurred in the zero and low PO43- treatments, with negligible transformation in higher PO43- treatments. Overall, the results suggest that intermediate PO43- loadings provide conditions which facilitate optimal reductive dissolution of schwertmannite. At zero PO43- loading, reductive dissolution appears to be constrained by the rapid transformation of schwertmannite to goethite, which thereby decreases the bioavailability of solid-phase Fe(III). Conversely, at high loadings, PO43- appears to stabilize the schwertmannite surface against dissolution; probably via the formation of strong surface complexes.
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Affiliation(s)
- Valerie A Schoepfer
- Southern Cross GeoScience, Southern Cross University , PO Box 157, Lismore, New South Wales 2480, Australia
| | - Edward D Burton
- Southern Cross GeoScience, Southern Cross University , PO Box 157, Lismore, New South Wales 2480, Australia
| | - Scott G Johnston
- Southern Cross GeoScience, Southern Cross University , PO Box 157, Lismore, New South Wales 2480, Australia
| | - Peter Kraal
- Department of Earth Sciences-Geochemistry, Faculty of GeoSciences, Utrecht University , PO Box 80021, 3508 TA Utrecht, The Netherlands
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28
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Cheng X, Wang J, Chen B, Wang Y, Liu J, Liu L. Effectiveness of phosphate removal during anaerobic digestion of waste activated sludge by dosing iron(III). JOURNAL OF ENVIRONMENTAL MANAGEMENT 2017; 193:32-39. [PMID: 28188987 DOI: 10.1016/j.jenvman.2017.02.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/17/2016] [Revised: 02/02/2017] [Accepted: 02/05/2017] [Indexed: 06/06/2023]
Abstract
Phosphate-Fe(II) precipitation induced by Fe(III) reduction during the anaerobic digestion of excess activated sludge was investigated for the removal of phosphorus and its possible recovery. The experiments were conducted with three Fe(III) sources at 35 °C and 55 °C. The results show that ferrihydrite-Fe(III) was effectively reduced during the anaerobic sludge digestion by 63% and 96% under mesophilic and thermophilic conditions, respectively. Whereas FeCl3-Fe(III) was only mesophilically reducible and the reduction of hematite-Fe(III) was unnoticeable at either temperature. Efficient precipitation of vivianite was not observed although high saturation index values, e.g., >14 (activity reduction not considered), had been reached. This reveals the complexity of vivianite precipitation in anaerobic digestion systems; for example, Fe(II) complexation and organic interference could not be ignored. With ferrihydrite amendments at a Fe/TP of 1.5, methane production from sludge digestion was reduced by 35.1% at 35 °C, and was unaffected when the digestion temperature went up to 55 °C. But, acidic FeCl3 severely inhibited the methane production and consequently the sludge biomass degradation.
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Affiliation(s)
- Xiang Cheng
- Beijing Key Laboratory for Source Control Technology of Water Pollution, Beijing Forestry University, Beijing 100083, China.
| | - Jue Wang
- Beijing Key Laboratory for Source Control Technology of Water Pollution, Beijing Forestry University, Beijing 100083, China
| | - Bing Chen
- Beijing Key Laboratory for Source Control Technology of Water Pollution, Beijing Forestry University, Beijing 100083, China
| | - Yu Wang
- Beijing China Sciences Guoyi Environment Protection Engineering Co., Ltd, No. 8 Caihefang Road, Beijing 100080, China
| | - Jiaqi Liu
- Beijing Key Laboratory for Source Control Technology of Water Pollution, Beijing Forestry University, Beijing 100083, China
| | - Lubo Liu
- California State University, Fresno, CA 93740, USA
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29
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Chen Q, Jia R, Qu D, Li M. Changes and relations of photosynthesis and iron cycling in anoxic paddy soil amended with high concentrations of sulfate. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:11425-11434. [PMID: 28316044 DOI: 10.1007/s11356-017-8777-z] [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: 04/20/2016] [Accepted: 03/08/2017] [Indexed: 06/06/2023]
Abstract
Sulfate contamination is an increasingly serious environmental problem related to microbial reduction processes in anoxic paddy soil. This study revealed the changes and interrelations of ferric iron [Fe(III)] reduction, ferrous iron [Fe(II)] oxidation, and oxygenic photosynthesis in an anoxic paddy soil (Fe-accumuli-Stagnic Anthrosols) amended with a range of high sulfate concentrations. Soil slurries mixed with 0 (control), 50, 100, 200, and 400 mmol kg-1 Na2SO4 were incubated anaerobically under dark and light conditions. The changes in chlorophyll a (Chl a), Fe(II), pH levels, and the chlorophyll absorption spectrum were determined over a 42-day period. Fe(II) concentrations increased with the addition of sulfate under dark conditions, while Fe(III) reduction potential was enhanced by increasing sulfate addition. The effect of light on Fe(II) concentration was observed after 16 days of incubation, when Fe(II) started to decrease markedly in the control. The decrease in Fe(II) slowed with increasing sulfate addition. The concentrations of Chl a increased in all treatments after 16 days of incubation under light conditions. There was a reduction in Chl a accumulation with increasing sulfate at the same incubation time. The absorption peaks of chlorophyll remained shorter than the 700-nm wavelength throughout the incubation period. The pH of all treatments decreased in the first week and then increased thereafter. The pH increased with sulfate addition and light conditions. In conclusion, contamination with high concentrations of sulfate could accelerate Fe(III) reduction while inhibiting oxygenic photosynthesis, which correspondingly slows chemical Fe(II) oxidation in an anoxic paddy soil.
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Affiliation(s)
- Qin Chen
- College of Natural Resources and Environment, Northwest A & F University, No. 3 Taicheng Road, Yangling, 712100, Shaanxi Province, China
| | - Rong Jia
- College of Natural Resources and Environment, Northwest A & F University, No. 3 Taicheng Road, Yangling, 712100, Shaanxi Province, China
| | - Dong Qu
- College of Natural Resources and Environment, Northwest A & F University, No. 3 Taicheng Road, Yangling, 712100, Shaanxi Province, China.
| | - Ming Li
- College of Natural Resources and Environment, Northwest A & F University, No. 3 Taicheng Road, Yangling, 712100, Shaanxi Province, China
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30
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Zhang M, Liu X, Li Y, Wang G, Wang Z, Wen J. Microbial community and metabolic pathway succession driven by changed nutrient inputs in tailings: effects of different nutrients on tailing remediation. Sci Rep 2017; 7:474. [PMID: 28352108 PMCID: PMC5428726 DOI: 10.1038/s41598-017-00580-3] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Accepted: 03/06/2017] [Indexed: 11/24/2022] Open
Abstract
To solve the competition problem of acidophilic bacteria and sulfate-reducing bacteria in the practical application of mine tailing bioremediation, research into the mechanisms of using different nutrients to adjust the microbial community was conducted. Competition experiments involving acidophilic bacteria and sulfate-reducing bacteria were performed by supplementing the media with yeast extract, tryptone, lactate, and glucose. The physiochemical properties were determined, and the microbial community structure and biomass were investigated using MiSeq sequencing and qRT-PCR, respectively. Four nutrients had different remediation mechanisms and yielded different remediation effects. Yeast extract and tryptone (more than 1.6 g/L) promoted sulfate-reducing bacteria and inhibited acidophilic bacteria. Lactate inhibited both sulfate-reducing and acidophilic bacteria. Glucose promoted acidophilic bacteria more than sulfate-reducing bacteria. Yeast extract was the best choice for adjusting the microbial community and bioremediation, followed by tryptone. Lactate kept the physiochemical properties stable or made slight improvements; however, glucose was not suitable for mine tailing remediation. Different nutrients had significant effects on the abundance of the second enzyme of the sulfate-reducing pathway (p < 0.05), which is the rate-limiting step of sulfate-reducing pathways. Nutrients changed the remediation effects effectively by adjusting the microbial community and the abundance of the sulfate-reducing rate-limiting enzyme.
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Affiliation(s)
- Mingjiang Zhang
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China
| | - Xingyu Liu
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China.
| | - Yibin Li
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China
| | - Guangyuan Wang
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China
| | - Zining Wang
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China
| | - Jiankang Wen
- National Engineering Laboratory of Biohydrometallurgy, General Research Institute for Nonferrous Metals, No. 2 Xinjiekouwai Street, Beijing, 100088, China
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Chakravorty D, Khan MF, Patra S. Multifactorial level of extremostability of proteins: can they be exploited for protein engineering? Extremophiles 2017; 21:419-444. [PMID: 28283770 DOI: 10.1007/s00792-016-0908-9] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2016] [Accepted: 12/19/2016] [Indexed: 12/20/2022]
Abstract
Research on extremostable proteins has seen immense growth in the past decade owing to their industrial importance. Basic research of attributes related to extreme-stability requires further exploration. Modern mechanistic approaches to engineer such proteins in vitro will have more impact in industrial biotechnology economy. Developing a priori knowledge about the mechanism behind extreme-stability will nurture better understanding of pathways leading to protein molecular evolution and folding. This review is a vivid compilation about all classes of extremostable proteins and the attributes that lead to myriad of adaptations divulged after an extensive study of 6495 articles belonging to extremostable proteins. Along with detailing on the rationale behind extreme-stability of proteins, emphasis has been put on modern approaches that have been utilized to render proteins extremostable by protein engineering. It was understood that each protein shows different approaches to extreme-stability governed by minute differences in their biophysical properties and the milieu in which they exist. Any general rule has not yet been drawn regarding adaptive mechanisms in extreme environments. This review was further instrumental to understand the drawback of the available 14 stabilizing mutation prediction algorithms. Thus, this review lays the foundation to further explore the biophysical pleiotropy of extreme-stable proteins to deduce a global prediction model for predicting the effect of mutations on protein stability.
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Affiliation(s)
- Debamitra Chakravorty
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India
| | - Mohd Faheem Khan
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India
| | - Sanjukta Patra
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati, 781039, Assam, India.
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Zhou L, Liu J, Dong F. Spectroscopic study on biological mackinawite (FeS) synthesized by ferric reducing bacteria (FRB) and sulfate reducing bacteria (SRB): Implications for in-situ remediation of acid mine drainage. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 173:544-548. [PMID: 27744066 DOI: 10.1016/j.saa.2016.09.053] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2016] [Revised: 09/24/2016] [Accepted: 09/28/2016] [Indexed: 06/06/2023]
Abstract
Mackinawite (FeS), widespread in low temperature aquatic environments, is generally considered to be the first Fe sulfide formed in sedimentary environments which has shown effective immobilization of heavy metals and toxic oxyanions through various sorption reactions. The spectroscopic study researches on mackinawite formed by FRB and SRB and its environmental implication for in-situ remediation of acid mine drainage where contains large amounts of Fe3+ and SO42-. The XRD result of biologically synthetic particles shows that these particles are mainly composed of mackinawite (FeS0.9). The Raman peaks observed at 208, 256, 282, 298cm-1 are attributed to FeS stretching vibrations of mackinawite. The Attenuated Total Reflection-Fourier Transform Infrared Spectroscopy (ATR-FTIR) reveals that the diagnostic bands of low intensity for these FeS particles occur at 412-425cm-1 and 607-622cm-1, which are assigned to the stretching vibrations of SS and FeS bonds. The Raman and IR vibrations from organic components both confirm that these particles are biogenic origin. The IR spectra of biologically synthesized mackinawite for different aging times show that the nano-sized particles mackinwate will be completely oxidized within 10h. All these findings have good implications for in-situ remediation of acid mine drainage.
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Affiliation(s)
- Lei Zhou
- The Key Laboratory of Solid Waste Treatment and Resource, Ministry of Education, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China; School of Environment and Resource, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China
| | - Jing Liu
- The Key Laboratory of Solid Waste Treatment and Resource, Ministry of Education, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China; School of Environment and Resource, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China
| | - Faqin Dong
- The Key Laboratory of Solid Waste Treatment and Resource, Ministry of Education, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China; School of Environment and Resource, Southwest University of Science and Technology, Mianyang, Sichuan 621010, China.
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Liu J, Zhou L, Dong F, Hudson-Edwards KA. Enhancing As(V) adsorption and passivation using biologically formed nano-sized FeS coatings on limestone: Implications for acid mine drainage treatment and neutralization. CHEMOSPHERE 2017; 168:529-538. [PMID: 27852449 DOI: 10.1016/j.chemosphere.2016.11.037] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2016] [Revised: 10/14/2016] [Accepted: 11/07/2016] [Indexed: 06/06/2023]
Abstract
The iron-reducing bacterium Acidiphilium cryputum JF-5 and a sulfate reducing bacterium (SRB) collected and purified from the mine drainage of a copper mine in the northwest of Sichuan Province, China, were used to biologically synthesize nano-sized FeS-coated limestone to remove As(V) from solution. The adsorption efficiency of As(V) is improved from 6.64 μg/g with limestone alone to 187 μg/g with the FeS coated limestone in both batch and column experiments. The hydraulic conductivity of the columns are also improved by the presence of the nano-sized FeS coatings, but the solution neutralization performance of the limestone can be reduced by passivation by gypsum and Fe(III) precipitates. Calculations for FeS-coated limestone dissolution experiments show that the process can be described as nCa.sol = At1/2 - nCa,gyp. The results suggest that FeS-coated limestone may be an effective medium for remediating As(V)-bearing solutions such as acid mine drainage in systems such as Permeable Reactive Barriers.
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Affiliation(s)
- Jing Liu
- The Key Laboratory of Solid Waste Treatment and Resource Recycle, Ministry of Education, Southwest University of Science and Technology, Mianyang, 621010, China
| | - Lei Zhou
- The Key Laboratory of Solid Waste Treatment and Resource Recycle, Ministry of Education, Southwest University of Science and Technology, Mianyang, 621010, China
| | - Faqin Dong
- The Key Laboratory of Solid Waste Treatment and Resource Recycle, Ministry of Education, Southwest University of Science and Technology, Mianyang, 621010, China
| | - Karen A Hudson-Edwards
- Department of Earth and Planetary Sciences, Birkbeck, University of London, Malet St., London, WC1E 7HX, UK.
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Sticking together: inter-species aggregation of bacteria isolated from iron snow is controlled by chemical signaling. ISME JOURNAL 2017; 11:1075-1086. [PMID: 28140394 PMCID: PMC5437920 DOI: 10.1038/ismej.2016.186] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/19/2016] [Revised: 10/25/2016] [Accepted: 11/15/2016] [Indexed: 11/09/2022]
Abstract
Marine and lake snow is a continuous shower of mixed organic and inorganic aggregates falling from the upper water where primary production is substantial. These pelagic aggregates provide a niche for microbes that can exploit these physical structures and resources for growth, thus are local hot spots for microbial activity. However, processes underlying their formation remain unknown. Here, we investigated the role of chemical signaling between two co-occurring bacteria that each make up more than 10% of the community in iron-rich lakes aggregates (iron snow). The filamentous iron-oxidizing Acidithrix strain showed increased rates of Fe(II) oxidation when incubated with cell-free supernatant of the heterotrophic iron-reducing Acidiphilium strain. Amendment of Acidithrix supernatant to motile cells of Acidiphilium triggered formation of cell aggregates displaying similar morphology to those of iron snow. Comparative metabolomics enabled the identification of the aggregation-inducing signal, 2-phenethylamine, which also induced faster growth of Acidiphilium. We propose a model that shows rapid iron snow formation, and ultimately energy transfer from the photic zone to deeper water layers, is controlled via a chemically mediated interplay.
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Dong Y, Sanford RA, Chang YJ, McInerney MJ, Fouke BW. Hematite Reduction Buffers Acid Generation and Enhances Nutrient Uptake by a Fermentative Iron Reducing Bacterium, Orenia metallireducens Strain Z6. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:232-242. [PMID: 27943672 DOI: 10.1021/acs.est.6b04126] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
Fermentative iron-reducing organisms have been identified in a variety of environments. Instead of coupling iron reduction to respiration, they have been consistently observed to use ferric iron minerals as an electron sink for fermentation. In the present study, a fermentative iron reducer, Orenia metallireducens strain Z6, was shown to use iron reduction to enhance fermentation not only by consuming electron equivalents, but also by generating alkalinity that effectively buffers the pH. Fermentation of glucose by this organism in the presence of a ferric oxide mineral, hematite (Fe2O3), resulted in enhanced glucose decomposition compared with fermentation in the absence of an iron source. Parallel evidence (i.e., genomic reconstruction, metabolomics, thermodynamic analyses, and calculation of electron transfer) suggested hematite reduction as a proton-consuming reaction effectively consumed acid produced by fermentation. The buffering effect of hematite was further supported by a greater extent of glucose utilization by strain Z6 in media with increasing buffer capacity. Such maintenance of a stable pH through hematite reduction for enhanced glucose fermentation complements the thermodynamic interpretation of interactions between microbial iron reduction and other biogeochemical processes. This newly discovered feature of iron reducer metabolism also has significant implications for groundwater management and contaminant remediation by providing microbially mediated buffering systems for the associated microbial and/or chemical reactions.
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Affiliation(s)
| | | | | | - Michael J McInerney
- Department of Microbiology and Plant Biology, University of Oklahoma , Norman, Oklahoma 73019, United States
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Kadnikov VV, Ivasenko DA, Beletsky AV, Mardanov AV, Danilova EV, Pimenov NV, Karnachuk OV, Ravin NV. Effect of metal concentration on the microbial community in acid mine drainage of a polysulfide ore deposit. Microbiology (Reading) 2016. [DOI: 10.1134/s0026261716060126] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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Fonti V, Dell'Anno A, Beolchini F. Does bioleaching represent a biotechnological strategy for remediation of contaminated sediments? THE SCIENCE OF THE TOTAL ENVIRONMENT 2016; 563-564:302-319. [PMID: 27139303 DOI: 10.1016/j.scitotenv.2016.04.094] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2015] [Revised: 03/30/2016] [Accepted: 04/01/2016] [Indexed: 06/05/2023]
Abstract
Bioleaching is a consolidated biotechnology in the mining industry and in bio-hydrometallurgy, where microorganisms mediate the solubilisation of metals and semi-metals from mineral ores and concentrates. Bioleaching also has the potential for ex-situ/on-site remediation of aquatic sediments that are contaminated with metals, which represent a key environmental issue of global concern. By eliminating or reducing (semi-)metal contamination of aquatic sediments, bioleaching may represent an environmentally friendly and low-cost strategy for management of contaminated dredged sediments. Nevertheless, the efficiency of bioleaching in this context is greatly influenced by several abiotic and biotic factors. These factors need to be carefully taken into account before selecting bioleaching as a suitable remediation strategy. Here we review the application of bioleaching for sediment bioremediation, and provide a critical view of the main factors that affect its performance. We also discuss future research needs to improve bioleaching strategies for contaminated aquatic sediments, in view of large-scale applications.
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Affiliation(s)
- Viviana Fonti
- Department of Life and Environmental Sciences, Università Politecnica delle Marche, Via Brecce Bianche, 60131, Ancona, Italy.
| | - Antonio Dell'Anno
- Department of Life and Environmental Sciences, Università Politecnica delle Marche, Via Brecce Bianche, 60131, Ancona, Italy
| | - Francesca Beolchini
- Department of Life and Environmental Sciences, Università Politecnica delle Marche, Via Brecce Bianche, 60131, Ancona, Italy
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Influence of Vinasse Application in the Structure and Composition of the Bacterial Community of the Soil under Sugarcane Cultivation. Int J Microbiol 2016; 2016:2349514. [PMID: 27528875 PMCID: PMC4977393 DOI: 10.1155/2016/2349514] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2016] [Revised: 05/30/2016] [Accepted: 06/26/2016] [Indexed: 11/17/2022] Open
Abstract
Although the use of vinasse as a waste helps replenish soil nutrients and improves the quality of the sugarcane crop, it is known that vinasse residues alter the diversity of bacteria naturally present in the soil. The actual impacts of vinasse application on the selection of bacterial taxa are not understood because no studies have addressed this phenomenon directly. Analysis of 16S rRNA gene clone sequences from four soil types showed that the soil planted with sugarcane and fertilized with vinasse has a high diversity of bacteria compared to other biomes, where Acidobacteria were the second most abundant phylum. Although the composition and structure of bacterial communities differ significantly in the four environments (Libshuff's test), forest soils and soil planted with sugarcane without vinasse fertilizer were similar to each other because they share at least 28 OTUs related to Rhizobiales, which are important agents involved in nitrogen fixation. OTUs belonging to Actinomycetales were detected more often in the soil that had vinasse applied, indicating that these groups are more favored by this type of land management.
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An overview of siderophores for iron acquisition in microorganisms living in the extreme. Biometals 2016; 29:551-71. [PMID: 27457587 DOI: 10.1007/s10534-016-9949-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Accepted: 07/08/2016] [Indexed: 12/11/2022]
Abstract
Siderophores are iron-chelating molecules produced by microbes when intracellular iron concentrations are low. Low iron triggers a cascade of gene activation, allowing the cell to survive due to the synthesis of important proteins involved in siderophore synthesis and transport. Generally, siderophores are classified by their functional groups as catecholates, hydroxamates and hydroxycarboxylates. Although other chemical structural modifications and functional groups can be found. The functional groups participate in the iron-chelating process when the ferri-siderophore complex is formed. Classified as acidophiles, alkaliphiles, halophiles, thermophiles, psychrophiles, piezophiles, extremophiles have particular iron requirements depending on the environmental conditions in where they grow. Most of the work done in siderophore production by extremophiles is based in siderophore concentration and/or genomic studies determining the presence of siderophore synthesis and transport genes. Siderophores produced by extremophiles are not well known and more work needs to be done to elucidate chemical structures and their role in microorganism survival and metal cycling in extreme environments.
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Ruecker A, Schröder C, Byrne J, Weigold P, Behrens S, Kappler A. Geochemistry and Mineralogy of Western Australian Salt Lake Sediments: Implications for Meridiani Planum on Mars. ASTROBIOLOGY 2016; 16:525-538. [PMID: 27258848 DOI: 10.1089/ast.2015.1429] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
UNLABELLED Hypersaline lakes are characteristic for Western Australia and display a rare combination of geochemical and mineralogical properties that make these lakes potential analogues for past conditions on Mars. In our study, we focused on the geochemistry and mineralogy of Lake Orr and Lake Whurr. While both lakes are poor in organic carbon (<1%), the sediments' pH values differ and range from 3.8 to 4.8 in Lake Orr and from 5.4 to 6.3 in Lake Whurr sediments. Lake Whurr sediments were dominated by orange and red sediment zones in which the main Fe minerals were identified as hematite, goethite, and tentatively jarosite and pyrite. Lake Orr was dominated by brownish and blackish sediments where the main Fe minerals were goethite and another paramagnetic Fe(III)-phase that could not be identified. Furthermore, a likely secondary Fe(II)-phase was observed in Lake Orr sediments. The mineralogy of these two salt lakes in the sampling area is strongly influenced by events such as flooding, evaporation, and desiccation, processes that explain at least to some extent the observed differences between Lake Orr and Lake Whurr. The iron mineralogy of Lake Whurr sediments and the high salinity make this lake a suitable analogue for Meridiani Planum on Mars, and in particular the tentative identification of pyrite in Lake Whurr sediments has implications for the interpretation of the Fe mineralogy of Meridiani Planum sediments. KEY WORDS Western Australia-Salt lakes-Jarosite-Hematite-Pyrite-Mars analogue. Astrobiology 16, 525-538.
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Affiliation(s)
- A Ruecker
- 1 Geomicrobiology, Center for Applied Geosciences, University of Tübingen , Tübingen, Germany
| | - C Schröder
- 2 Biological and Environmental Sciences, School of Natural Sciences, University of Stirling , Stirling, Scotland, UK
| | - J Byrne
- 1 Geomicrobiology, Center for Applied Geosciences, University of Tübingen , Tübingen, Germany
| | - P Weigold
- 1 Geomicrobiology, Center for Applied Geosciences, University of Tübingen , Tübingen, Germany
| | - S Behrens
- 1 Geomicrobiology, Center for Applied Geosciences, University of Tübingen , Tübingen, Germany
| | - A Kappler
- 1 Geomicrobiology, Center for Applied Geosciences, University of Tübingen , Tübingen, Germany
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Sun W, Xiao E, Krumins V, Dong Y, Xiao T, Ning Z, Chen H, Xiao Q. Characterization of the microbial community composition and the distribution of Fe-metabolizing bacteria in a creek contaminated by acid mine drainage. Appl Microbiol Biotechnol 2016; 100:8523-35. [PMID: 27277134 DOI: 10.1007/s00253-016-7653-y] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2016] [Revised: 05/23/2016] [Accepted: 05/26/2016] [Indexed: 01/09/2023]
Abstract
A small watershed heavily contaminated by long-term acid mine drainage (AMD) from an upstream abandoned coal mine was selected to study the microbial community developed in such extreme system. The watershed consists of AMD-contaminated creek, adjacent contaminated soils, and a small cascade aeration unit constructed downstream, which provide an excellent contaminated site to study the microbial response in diverse extreme AMD-polluted environments. The results showed that the innate microbial communities were dominated by acidophilic bacteria, especially acidophilic Fe-metabolizing bacteria, suggesting that Fe and pH are the primary environmental factors in governing the indigenous microbial communities. The distribution of Fe-metabolizing bacteria showed distinct site-specific patterns. A pronounced shift from diverse communities in the upstream to Proteobacteria-dominated communities in the downstream was observed in the ecosystem. This location-specific trend was more apparent at genus level. In the upstream samples (sampling sites just below the coal mining adit), a number of Fe(II)-oxidizing bacteria such as Alicyclobacillus spp., Metallibacterium spp., and Acidithrix spp. were dominant, while Halomonas spp. were the major Fe(II)-oxidizing bacteria observed in downstream samples. Additionally, Acidiphilium, an Fe(III)-reducing bacterium, was enriched in the upstream samples, while Shewanella spp. were the dominant Fe(III)-reducing bacteria in downstream samples. Further investigation using linear discriminant analysis (LDA) effect size (LEfSe), principal coordinate analysis (PCoA), and unweighted pair group method with arithmetic mean (UPGMA) clustering confirmed the difference of microbial communities between upstream and downstream samples. Canonical correspondence analysis (CCA) and Spearman's rank correlation indicate that total organic carbon (TOC) content is the primary environmental parameter in structuring the indigenous microbial communities, suggesting that the microbial communities are shaped by three major environmental parameters (i.e., Fe, pH, and TOC). These findings were beneficial to a better understanding of natural attenuation of AMD.
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Affiliation(s)
- Weimin Sun
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China.,Department of Biochemistry and Microbiology, Rutgers University, New Brunswick, NJ, 08901, USA.,Guangdong Institute of Eco-environment and Soil Sciences, Guangzhou, 510650, China
| | - Enzong Xiao
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Valdis Krumins
- Department of Environmental Sciences, Rutgers University, New Brunswick, NJ, 08901, USA
| | - Yiran Dong
- Department of Geology, University of Illinois-Urbana Champaign, Urbana, IL, 61801, USA
| | - Tangfu Xiao
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China. .,Innovation Center and Key Laboratory of Waters Safety & Protection in the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, 510006, China.
| | - Zengping Ning
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China
| | - Haiyan Chen
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Qingxiang Xiao
- State Key Laboratory of Environmental Geochemistry, Chinese Academy of Sciences, 99 Lincheng Road West, Guiyang, 550081, Guizhou Province, People's Republic of China.,University of Chinese Academy of Sciences, Beijing, 100049, China
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Abstract
In the development of new processes to use the potential of iron reducing bacteria,Acidiphilium cryptum, the main bacteria involved in the reduction of Fe (III) compounds in acidic environments, could play an important biohydrometallurgical role. Thus, the bioleaching of hematite, goethite and a low-grade manganese ore was assayed, in vials and columns, using three different media; two of which included a ligand, oxalate, or a redox mediator, thionine.Although the presence ofA. cryptumwas essential for promoting the dissolution of both iron oxides and the bioleaching of manganese ore, the addition of oxalate to the media tripled and quadrupled the microbial dissolution of hematite and goethite, respectively. Oxalate also had a positive effect in assays performed in columns, however, the addition of thionine to the medium allowed to reach significant hematite dissolution.
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Ullrich SR, Poehlein A, Voget S, Hoppert M, Daniel R, Leimbach A, Tischler JS, Schlömann M, Mühling M. Permanent draft genome sequence of Acidiphilium sp. JA12-A1. Stand Genomic Sci 2015; 10:56. [PMID: 26380040 PMCID: PMC4571130 DOI: 10.1186/s40793-015-0040-y] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2014] [Accepted: 07/14/2015] [Indexed: 11/26/2022] Open
Abstract
The tenacious association between strains of the heterotrophic alphaproteobacterial genus Acidiphilium and chemolithotrophic iron oxidizing bacteria has long been known. In this context the genome of the heterotroph Acidiphilium sp. JA12-A1, an isolate from an iron oxidizing mixed culture derived from a pilot plant for bioremediation of acid mine drainage, was determined with the aim to reveal metabolic properties that are fundamental for the syntrophic interaction between Acidiphilium sp. JA12-A1 and the co-occurring chemolithoautotrophic iron oxidizer. The genome sequence consists of 4.18 Mbp on 297 contigs and harbors 4015 protein-coding genes and 50 RNA genes. Additionally, the molecular and functional organization of the Acidiphilium sp. JA12-A1 draft genome was compared to those of the close relatives Acidiphilium cryptum JF-5, Acidiphilium multivorum AIU301 and Acidiphilium sp. PM DSM 24941. The comparative genome analysis underlines the close relationship between these strains and the highly similar metabolic potential supports the idea that other Acidiphilium strains play a similar role in various acid mine drainage communities. Nevertheless, in contrast to other closely related strains Acidiphilium sp. JA12-A1 may be able to take up phosphonates as an additional source of phosphor.
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Affiliation(s)
- Sophie R. Ullrich
- />Institute of Biological Sciences, TU Bergakademie Freiberg, Leipziger Straße 29, 09599 Freiberg, Germany
| | - Anja Poehlein
- />Genomic and Applied Microbiology & Göttingen Genomics Laboratory, Georg-August-Universität Göttingen, Griesebachstr. 8, 37073 Göttingen, Germany
| | - Sonja Voget
- />Genomic and Applied Microbiology & Göttingen Genomics Laboratory, Georg-August-Universität Göttingen, Griesebachstr. 8, 37073 Göttingen, Germany
| | - Michael Hoppert
- />General Microbiology, Institute of Microbiology and Genetics, Georg-August University of Göttingen, Göttingen, Germany
| | - Rolf Daniel
- />Genomic and Applied Microbiology & Göttingen Genomics Laboratory, Georg-August-Universität Göttingen, Griesebachstr. 8, 37073 Göttingen, Germany
| | - Andreas Leimbach
- />Genomic and Applied Microbiology & Göttingen Genomics Laboratory, Georg-August-Universität Göttingen, Griesebachstr. 8, 37073 Göttingen, Germany
| | - Judith S. Tischler
- />Institute of Biological Sciences, TU Bergakademie Freiberg, Leipziger Straße 29, 09599 Freiberg, Germany
| | - Michael Schlömann
- />Institute of Biological Sciences, TU Bergakademie Freiberg, Leipziger Straße 29, 09599 Freiberg, Germany
| | - Martin Mühling
- />Institute of Biological Sciences, TU Bergakademie Freiberg, Leipziger Straße 29, 09599 Freiberg, Germany
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Hu Q, Guo X, Liang Y, Hao X, Ma L, Yin H, Liu X. Comparative metagenomics reveals microbial community differentiation in a biological heap leaching system. Res Microbiol 2015; 166:525-34. [DOI: 10.1016/j.resmic.2015.06.005] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2015] [Revised: 06/10/2015] [Accepted: 06/16/2015] [Indexed: 01/10/2023]
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Chen M, Lu G, Guo C, Yang C, Wu J, Huang W, Yee N, Dang Z. Sulfate migration in a river affected by acid mine drainage from the Dabaoshan mining area, South China. CHEMOSPHERE 2015; 119:734-743. [PMID: 25189685 DOI: 10.1016/j.chemosphere.2014.07.094] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2014] [Revised: 07/14/2014] [Accepted: 07/30/2014] [Indexed: 06/03/2023]
Abstract
Sulfate, a major component of acid mine drainage (AMD), its migration in an AMD-affected river which located at the Dabaoshan mine area of South China was investigated to pursue the remediation strategy. The existing factors of relatively low pH values of 2.8-3.9, high concentrations of SO4(2-) (∼1940 mg L(-1)) and Fe(3+) (∼112 mg L(-1)) facilitated the precipitation of schwertmannite (Fe8O8(OH)6SO4·nH2O) in the upstream river. Geochemical model calculations implied the river waters were supersaturated, creating the potential for precipitation of iron oxyhydroxides. These minerals evolved from schwertmannite to goethite with the increasing pH from 2.8 to 5.8 along the river. The concentration of heavy metals in river waters was great reduced as a result of precipitation effects. The large size of the exchangeable sulfate pool suggested that the sediments had a strong capacity to bind SO4(2-). The XRD results indicated that schwertmannite was the predominant form of sulfate-bearing mineral phases, which was likely to act as a major sulfate sink by incorporating water-borne sulfate into its internal structure and adsorbing it onto its surface. The small size of reduced sulfur pools and strong oxidative status in the surface sediments further showed that SO4(2-) shifting from water to sediment in form of sulfate reduction was not activated. In short, precipitation of sulfate-rich iron oxyhydroxides and subsequent SO4(2-) adsorption on these minerals as well as water dilution contributed to the attenuation of SO4(2-) along the river waters.
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Affiliation(s)
- Meiqin Chen
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; School of Environmental and Biological Engineering, Guangdong University of Petrochemical Technology, Maoming 525000, PR China
| | - Guining Lu
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, South China University of Technology, Guangzhou 510006, PR China.
| | - Chuling Guo
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, South China University of Technology, Guangzhou 510006, PR China
| | - Chengfang Yang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China
| | - Jingxiong Wu
- School of Environmental and Biological Engineering, Guangdong University of Petrochemical Technology, Maoming 525000, PR China
| | - Weilin Huang
- School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ 08901, USA
| | - Nathan Yee
- School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ 08901, USA
| | - Zhi Dang
- School of Environment and Energy, South China University of Technology, Guangzhou 510006, PR China; State Key Laboratory of Pulp and Paper Engineering, South China University of Technology, Guangzhou 510640, PR China.
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Haque N, Cho DC, Kwon SH. Characteristics of Electricity Production by Metallic and Non-metallic Anodes Immersed in Mud Sediment Using Sediment Microbial Fuel Cell. ACTA ACUST UNITED AC 2014. [DOI: 10.5322/jesi.2014.23.10.1745] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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48
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Wang J, Sickinger M, Ciobota V, Herrmann M, Rasch H, Rösch P, Popp J, Küsel K. Revealing the microbial community structure of clogging materials in dewatering wells differing in physico-chemical parameters in an open-cast mining area. WATER RESEARCH 2014; 63:222-233. [PMID: 25010562 DOI: 10.1016/j.watres.2014.06.021] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2014] [Revised: 05/27/2014] [Accepted: 06/16/2014] [Indexed: 06/03/2023]
Abstract
Iron rich deposits cause clogging the pumps and pipes of dewatering wells in open-cast mines, interfering with their function; however, little is known about either the microbial community structure or their potential role in the formation of these deposits. The microbial diversity and abundance of iron-oxidizing and -reducing bacteria were compared in pipe deposit samples with different levels of encrustation from 16 wells at three lignite mining sites. The groundwater varied in pH values from slightly acidic (4.5) to neutral (7.3), Fe(II) concentrations from 0.48 to 7.55 mM, oxygen content from 1.8 to 5.8 mg L(-1), and dissolved organic carbon (DOC) from 1.43 to 12.59 mg L(-1). There were high numbers of bacterial 16S rRNA gene copies in deposits, up to 2.5 × 10(10) copies g(-1) wet weight. Pyrosequencing analysis of bacterial 16S rRNA genes revealed that Proteobacteria was the most abundant phylum (63.3% of the total reads on average), followed by Actinobacteria (10.2%) and Chloroflexi (6.4%). Gallionella-related sequences dominated the bacterial community of pipe deposits and accounted for 48% of total sequence reads. Pipe deposits with amorphous ferrihydrite and schwertmannite mostly contained Gallionella (up to 1.51 × 10(10) 16S rRNA gene copies g(-1) wet weight), while more crystalline deposits showed a higher bacterial diversity. Surprisingly, the abundance of Gallionella was not correlated with groundwater pH, oxygen, or DOC content. Sideroxydans-related 16S rRNA gene copy numbers were one order of magnitude less than Gallionella, followed by acidophilic Ferrovum-related groups. Iron reducing bacteria were detected at rather low abundance, as was expected given the low iron reduction potential, although they could be stimulated by lactate amendment. The overall high abundance of Gallionella suggests that microbes may make major contributions to pipe deposit formation irrespective of the water geochemistry. Their iron oxidation activity might initiate the formation of amorphous iron oxides, potentially providing niches for other microorganisms later after crystallization, and leading to higher bacterial diversity along with deposit accumulation in later stages of clogging.
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Affiliation(s)
- Juanjuan Wang
- Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburgerstr. 159, 07743 Jena, Germany
| | - Maren Sickinger
- Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburgerstr. 159, 07743 Jena, Germany
| | - Valerian Ciobota
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany
| | - Martina Herrmann
- Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburgerstr. 159, 07743 Jena, Germany; German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Helfried Rasch
- Vattenfall Europe Mining AG, Vom-Stein-Straße 39, 03050 Cottbus, Germany
| | - Petra Rösch
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany
| | - Jürgen Popp
- Institute of Physical Chemistry, Friedrich Schiller University Jena, Helmholtzweg 4, 07743 Jena, Germany; Institute of Photonic Technology Jena, Albert-Einstein-Straße 9, 07745 Jena, Germany
| | - Kirsten Küsel
- Aquatic Geomicrobiology, Friedrich Schiller University Jena, Dornburgerstr. 159, 07743 Jena, Germany; German Center for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany.
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49
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Diao M, Taran E, Mahler S, Nguyen AV. A concise review of nanoscopic aspects of bioleaching bacteria-mineral interactions. Adv Colloid Interface Sci 2014; 212:45-63. [PMID: 25245273 DOI: 10.1016/j.cis.2014.08.005] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2014] [Revised: 08/01/2014] [Accepted: 08/28/2014] [Indexed: 01/17/2023]
Abstract
Bioleaching is a technology for the recovery of metals from minerals by means of microorganisms, which accelerate the oxidative dissolution of the mineral by regenerating ferric ions. Bioleaching processes take place at the interface of bacteria, sulfide mineral and leaching solution. The fundamental forces between a bioleaching bacterium and mineral surface are central to understanding the intricacies of interfacial phenomena, such as bacterial adhesion or detachment from minerals and the mineral dissolution. This review focuses on the current state of knowledge in the colloidal aspect of bacteria-mineral interactions, particularly for bioleaching bacteria. Special consideration is given to the microscopic structure of bacterial cells and the atomic force microscopy technique used in the quantification of fundamental interaction forces at nanoscale.
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Affiliation(s)
- Mengxue Diao
- School of Chemical Engineering, The University of Queensland, Brisbane, Queensland 4072, Australia
| | - Elena Taran
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, Queensland 4072, Australia
| | - Stephen Mahler
- School of Chemical Engineering, The University of Queensland, Brisbane, Queensland 4072, Australia; Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, Queensland 4072, Australia
| | - Anh V Nguyen
- School of Chemical Engineering, The University of Queensland, Brisbane, Queensland 4072, Australia.
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50
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Okamura K, Kawai A, Wakao N, Yamada T, Hiraishi A. Acidiphilium iwatense sp. nov., isolated from an acid mine drainage treatment plant, and emendation of the genus Acidiphilium. Int J Syst Evol Microbiol 2014; 65:42-48. [PMID: 25273513 DOI: 10.1099/ijs.0.065052-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Several strains of aerobic, acidophilic, chemo-organotrophic bacteria belonging to the genus Acidiphilium were isolated from an acid mine drainage (AMD) (pH 2.2) treatment plant. 16S rRNA gene sequence comparisons showed that most of the novel isolates formed a phylogenetically coherent group (designated Group Ia) distinguishable from any of the previously established species of the genus Acidiphilium at <98% similarity. This was supported by genomic DNA-DNA hybridization assays. The Group Ia isolates were characterized phenotypically by an oval cell morphology, non-motility, growth in the range pH 2.0-5.5 (optimum pH 3.5), lack of photosynthetic pigment and the presence of C19:0 cyclo ω8c as the main component of the cellular fatty acids and ubiquinone-10 as the major quinone. On the basis of these data, the name Acidiphilium iwatense sp. nov. is proposed to accommodate the Group Ia isolates, and the description of the genus Acidiphilium is emended. The type strain of Acidiphilium iwatense sp. nov. is MS8(T) ( =NBRC 107608(T)=KCTC 23505(T)).
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Affiliation(s)
- Keiko Okamura
- Electronics-Inspired Interdisciplinary Research Institute, Toyohashi University of Technology, Tempaku-cho, Toyohashi 441-8580, Japan
| | - Akiko Kawai
- Department of Environmental and Life Sciences, Toyohashi University of Technology, Tempaku-cho, Toyohashi 441-8580, Japan
| | - Norio Wakao
- Faculty of Agriculture, Iwate University, Ueda, Morioka 020-8550, Japan
| | - Takeshi Yamada
- Department of Environmental and Life Sciences, Toyohashi University of Technology, Tempaku-cho, Toyohashi 441-8580, Japan
| | - Akira Hiraishi
- Department of Environmental and Life Sciences, Toyohashi University of Technology, Tempaku-cho, Toyohashi 441-8580, Japan.,Electronics-Inspired Interdisciplinary Research Institute, Toyohashi University of Technology, Tempaku-cho, Toyohashi 441-8580, Japan
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