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Razia S, Hadibarata T, Lau SY. Acidophilic microorganisms in remediation of contaminants present in extremely acidic conditions. Bioprocess Biosyst Eng 2023; 46:341-358. [PMID: 36602611 DOI: 10.1007/s00449-022-02844-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Accepted: 12/21/2022] [Indexed: 01/06/2023]
Abstract
Acidophiles are a group of microorganisms that thrive in acidic environments where pH level is far below the neutral value 7.0. They belong to a larger family called extremophiles, which is a group that thrives in various extreme environmental conditions which are normally inhospitable to other organisms. Several human activities such as mining, construction and other industrial processes release highly acidic effluents and wastes into the environment. Those acidic wastes and wastewaters contain different types of pollutants such as heavy metals, radioactive, and organic, whose have adverse effects on human being as well as on other living organisms. To protect the whole ecosystem, those pollutants containing effluents or wastes must be clean properly before releasing into environment. Physicochemical cleanup processes under extremely acidic conditions are not always successful due to high cost and release of toxic byproducts. While in case of biological methods, except acidophiles, no other microorganisms cannot survive in highly acidic conditions. Therefore, acidophiles can be a good choice for remediation of different types of contaminants present in acidic conditions. In this review article, various roles of acidophilic microorganisms responsible for removing heavy metals and radioactive pollutants from acidic environments were discussed. Bioremediation of various acidic organic pollutants by using acidophiles was also studied. Overall, this review could be helpful to extend our knowledge as well as to do further relevant novel studies in the field of acidic pollutants remediation by applying acidophilic microorganisms.
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Affiliation(s)
- Sultana Razia
- Environmental Engineering Program, Faculty of Engineering and Science, Curtin University, Miri, Malaysia
| | - Tony Hadibarata
- Environmental Engineering Program, Faculty of Engineering and Science, Curtin University, Miri, Malaysia.
| | - Sie Yon Lau
- Department of Chemical and Energy Engineering, Faculty of Engineering and Science, Curtin University, Miri, Malaysia
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2
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Zając E, Fabiańska MJ, Jędrszczyk E, Skalski T. Hydrocarbon Degradation and Microbial Survival Improvement in Response to γ-Polyglutamic Acid Application. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 19:15066. [PMID: 36429785 PMCID: PMC9690351 DOI: 10.3390/ijerph192215066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 11/09/2022] [Accepted: 11/14/2022] [Indexed: 06/16/2023]
Abstract
To improve the environmental sustainability of cleanup activities of contaminated sites there is a need to develop technologies that minimize soil and habitat disturbances. Cleanup technologies, such as bioremediation, are based on biological products and processes, and they are important for the future of our planet. We studied the potential of γ-poly glutamic acid (PGA) as a natural component of biofilm produced by Bacillus sp. to be used for the decomposition of petroleum products, such as heavy naphtha (N), lubricating oil (O), and grease (G). The study aimed to assess the impact of the use of different concentrations of PGA on the degradation process of various fractions of petroleum hydrocarbons (PH) and its effect on bacterial population growth in harsh conditions of PH contamination. In laboratory conditions, four treatments of PGA with each of the petroleum products (N, O, and G) were tested: PGA0 (reference), PGA1 (1% PGA), PGA1B (1% PGA with Bacillus licheniformis), and PGA10 (10% PGA). After 7, 28, 56, and 112 days of the experiment, the percentage yield extraction, hydrocarbon mass loss, geochemical ratios, pH, electrical conductivity, and microorganisms survival were determined. We observed an increase in PH removal, reflected as a higher amount of extraction yield (growing with time and reaching about 11% in G) and loss of hydrocarbon mass (about 4% in O and G) in all treatments of the PGA compared to the reference. The positive degradation impact was intensive until around day 60. The PH removal stimulation by PGA was also reflected by changes in the values of geochemical ratios, which indicated that the highest rate of degradation was at the initial stage of the process. In general, for the stimulation of PH removal, using a lower (1%) concentration of PGA resulted in better performance than a higher concentration (10%). The PH removal facilitated by PGA is related to the anionic homopoliamid structure of the molecule and its action as a surfactant, which leads to the formation of micelles and the gradual release of PH absorbed in the zeolite carrier. Moreover, the protective properties of PGA against the extinction of bacteria under high concentrations of PH were identified. Generally, the γ-PGA biopolymer helps to degrade the hydrocarbon pollutants and stabilize the environment suitable for microbial degraders development.
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Affiliation(s)
- Ewelina Zając
- Department of Land Reclamation and Environmental Development, Faculty of Environmental Engineering and Land Surveying, University of Agriculture in Krakow, Al. Mickiewicza 21, 31-120 Krakow, Poland
| | - Monika J. Fabiańska
- Faculty of Earth Sciences, University of Silesia, 60 Będzińska Street, 41-200 Sosnowiec, Poland
| | - Elżbieta Jędrszczyk
- Department of Vegetable and Medicinal Plants, Faculty of Biotechnology and Horticulture, University of Agriculture in Krakow, al. 29 Listopada 45, 31-425 Krakow, Poland
| | - Tomasz Skalski
- Tunneling Group, Biotechnology Centre, Silesian University of Technology, Krzywoustego 8, 44-100 Gliwice, Poland
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Eze MO, Hose GC, George SC, Daniel R. Diversity and metagenome analysis of a hydrocarbon-degrading bacterial consortium from asphalt lakes located in Wietze, Germany. AMB Express 2021; 11:89. [PMID: 34125309 PMCID: PMC8203775 DOI: 10.1186/s13568-021-01250-4] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 06/08/2021] [Indexed: 01/21/2023] Open
Abstract
The pollution of terrestrial and aquatic environments by petroleum contaminants, especially diesel fuel, is a persistent environmental threat requiring cost-effective and environmentally sensitive remediation approaches. Bioremediation is one such approach, but is dependent on the availability of microorganisms with the necessary metabolic abilities and environmental adaptability. The aim of this study was to examine the microbial community in a petroleum contaminated site, and isolate organisms potentially able to degrade hydrocarbons. Through successive enrichment of soil microorganisms from samples of an historic petroleum contaminated site in Wietze, Germany, we isolated a bacterial consortium using diesel fuel hydrocarbons as sole carbon and energy source. The 16S rRNA gene analysis revealed the dominance of Alphaproteobacteria. We further reconstructed a total of 18 genomes from both the original soil sample and the isolated consortium. The analysis of both the metagenome of the consortium and the reconstructed metagenome-assembled genomes show that the most abundant bacterial genus in the consortium, Acidocella, possess many of the genes required for the degradation of diesel fuel aromatic hydrocarbons, which are often the most toxic component. This can explain why this genus proliferated in all the enrichment cultures. Therefore, this study reveals that the microbial consortium isolated in this study and its dominant genus, Acidocella, could potentially serve as an effective inoculum for the bioremediation of sites polluted with diesel fuel or other organic contaminants.
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Affiliation(s)
- Michael O Eze
- Department of Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Georg-August University of Göttingen, 37077, Göttingen, Germany.
- Department of Earth and Environmental Sciences, Macquarie University, Sydney, NSW, 2109, Australia.
| | - Grant C Hose
- Department of Biological Sciences, Macquarie University, Sydney, NSW, 2109, Australia
| | - Simon C George
- Department of Earth and Environmental Sciences, Macquarie University, Sydney, NSW, 2109, Australia
| | - Rolf Daniel
- Department of Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Georg-August University of Göttingen, 37077, Göttingen, Germany
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4
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Metagenome Analysis of a Hydrocarbon-Degrading Bacterial Consortium Reveals the Specific Roles of BTEX Biodegraders. Genes (Basel) 2021; 12:genes12010098. [PMID: 33466668 PMCID: PMC7828808 DOI: 10.3390/genes12010098] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2020] [Revised: 01/08/2021] [Accepted: 01/11/2021] [Indexed: 11/17/2022] Open
Abstract
Environmental contamination by petroleum hydrocarbons is of concern due to the carcinogenicity and neurotoxicity of these compounds. Successful bioremediation of organic contaminants requires bacterial populations with degradative capacity for these contaminants. Through successive enrichment of microorganisms from a petroleum-contaminated soil using diesel fuel as the sole carbon and energy source, we successfully isolated a bacterial consortium that can degrade diesel fuel hydrocarbons. Metagenome analysis revealed the specific roles of different microbial populations involved in the degradation of benzene, toluene, ethylbenzene and xylene (BTEX), and the metabolic pathways involved in these reactions. One hundred and five putative coding DNA sequences were identified as responsible for both the activation of BTEX and central metabolism (ring-cleavage) of catechol and alkylcatechols during BTEX degradation. The majority of the Coding DNA sequences (CDSs) were affiliated to Acidocella, which was also the dominant bacterial genus in the consortium. The inoculation of diesel fuel contaminated soils with the consortium resulted in approximately 70% hydrocarbon biodegradation, indicating the potential of the consortium for environmental remediation of petroleum hydrocarbons.
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Biodiversity of methylotrophic microbial communities and their potential role in mitigation of abiotic stresses in plants. Biologia (Bratisl) 2019. [DOI: 10.2478/s11756-019-00190-6] [Citation(s) in RCA: 86] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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6
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Ivanova AE, Borzenkov IA. Aerobic Biodegradation of Crude Oil Components by Acidophilic Mycobacteria. Microbiology (Reading) 2018. [DOI: 10.1134/s0026261718040100] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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Xu R, Yang ZH, Zheng Y, Zhang HB, Liu JB, Xiong WP, Zhang YR, Ahmad K. Depth-resolved microbial community analyses in the anaerobic co-digester of dewatered sewage sludge with food waste. BIORESOURCE TECHNOLOGY 2017; 244:824-835. [PMID: 28841787 DOI: 10.1016/j.biortech.2017.07.056] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2017] [Revised: 07/08/2017] [Accepted: 07/10/2017] [Indexed: 06/07/2023]
Abstract
This study evaluated the impacts of FW addition on co-digestion in terms of microbial community. Anaerobic co-digestion (AcoD) reactors were conducted at gradually increased addition of food waste (FW) from 0 to 4kg-VSm-3d-1 for 220days. Although no markable acidification was found at an OLR of 4kg-VSm-3d-1, the unhealthy operation was observed in aspect of an inhibited methane yield (185mLg-1VSadded), which was restricted by 40% when compared with its peak value. Deterioration of digestion process was timely indicated by the dramatic decrease of archaeal population and microbial biodiversity. Furthermore, the cooperation network showed a considerable number of rare species (<1%) were strongly correlated with methane production, which were frequently overlooked due to the limits of detecting resolution or analysis methods before. Advances in the analysis of sensitive microbial community enable us to detect the early disturbances in AcoD reactors.
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Affiliation(s)
- Rui Xu
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
| | - Zhao-Hui Yang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China.
| | - Yue Zheng
- Department of Chemical Engineering, University of Washington, Seattle, WA 98195, United States
| | - Hai-Bo Zhang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
| | - Jian-Bo Liu
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
| | - Wei-Ping Xiong
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
| | - Yan-Ru Zhang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
| | - Kito Ahmad
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, PR China; Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha 410082, PR China
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8
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Biodegradation of polycyclic aromatic hydrocarbons by an acidophilic Stenotrophomonas maltophilia strain AJH1 isolated from a mineral mining site in Saudi Arabia. Extremophiles 2016; 21:163-174. [DOI: 10.1007/s00792-016-0892-0] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Accepted: 11/07/2016] [Indexed: 10/20/2022]
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9
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Ivanova AE, Sukhacheva MV, Kanat’eva AY, Kravchenko IK, Kurganov AA. Hydrocarbon-oxidizing potential and the genes for n-alkane biodegradation in a new acidophilic mycobacterial association from sulfur blocks. Microbiology (Reading) 2014. [DOI: 10.1134/s0026261714060095] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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10
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Mukherjee S, Juottonen H, Siivonen P, Lloret Quesada C, Tuomi P, Pulkkinen P, Yrjälä K. Spatial patterns of microbial diversity and activity in an aged creosote-contaminated site. ISME JOURNAL 2014; 8:2131-42. [PMID: 25105905 DOI: 10.1038/ismej.2014.151] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2014] [Revised: 05/16/2014] [Accepted: 05/21/2014] [Indexed: 11/09/2022]
Abstract
Restoration of polluted sites via in situ bioremediation relies heavily on the indigenous microbes and their activities. Spatial heterogeneity of microbial populations, contaminants and soil chemical parameters on such sites is a major hurdle in optimizing and implementing an appropriate bioremediation regime. We performed a grid-based sampling of an aged creosote-contaminated site followed by geostatistical modelling to illustrate the spatial patterns of microbial diversity and activity and to relate these patterns to the distribution of pollutants. Spatial distribution of bacterial groups unveiled patterns of niche differentiation regulated by patchy distribution of pollutants and an east-to-west pH gradient at the studied site. Proteobacteria clearly dominated in the hot spots of creosote pollution, whereas the abundance of Actinobacteria, TM7 and Planctomycetes was considerably reduced from the hot spots. The pH preferences of proteobacterial groups dominating in pollution could be recognized by examining the order and family-level responses. Acidobacterial classes came across as generalists in hydrocarbon pollution whose spatial distribution seemed to be regulated solely by the pH gradient. Although the community evenness decreased in the heavily polluted zones, basal respiration and fluorescein diacetate hydrolysis rates were higher, indicating the adaptation of specific indigenous microbial populations to hydrocarbon pollution. Combining the information from the kriged maps of microbial and soil chemistry data provided a comprehensive understanding of the long-term impacts of creosote pollution on the subsurface microbial communities. This study also highlighted the prospect of interpreting taxa-specific spatial patterns and applying them as indicators or proxies for monitoring polluted sites.
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Affiliation(s)
- Shinjini Mukherjee
- Department of Biosciences, MEM Group, University of Helsinki, Helsinki, Finland
| | - Heli Juottonen
- Department of Biosciences, MEM Group, University of Helsinki, Helsinki, Finland
| | - Pauli Siivonen
- Department of Biosciences, MEM Group, University of Helsinki, Helsinki, Finland
| | | | | | | | - Kim Yrjälä
- Department of Biosciences, MEM Group, University of Helsinki, Helsinki, Finland
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11
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Nie Y, Chi CQ, Fang H, Liang JL, Lu SL, Lai GL, Tang YQ, Wu XL. Diverse alkane hydroxylase genes in microorganisms and environments. Sci Rep 2014; 4:4968. [PMID: 24829093 PMCID: PMC4021335 DOI: 10.1038/srep04968] [Citation(s) in RCA: 141] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2013] [Accepted: 04/07/2014] [Indexed: 11/08/2022] Open
Abstract
AlkB and CYP153 are important alkane hydroxylases responsible for aerobic alkane degradation in bioremediation of oil-polluted environments and microbial enhanced oil recovery. Since their distribution in nature is not clear, we made the investigation among thus-far sequenced 3,979 microbial genomes and 137 metagenomes from terrestrial, freshwater, and marine environments. Hundreds of diverse alkB and CYP153 genes including many novel ones were found in bacterial genomes, whereas none were found in archaeal genomes. Moreover, these genes were detected with different distributional patterns in the terrestrial, freshwater, and marine metagenomes. Hints for horizontal gene transfer, gene duplication, and gene fusion were found, which together are likely responsible for diversifying the alkB and CYP153 genes adapt to the ubiquitous distribution of different alkanes in nature. In addition, different distributions of these genes between bacterial genomes and metagenomes suggested the potentially important roles of unknown or less common alkane degraders in nature.
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Affiliation(s)
- Yong Nie
- College of Engineering, Peking University, Beijing 100871, P. R. China
- Institute of Engineering (Baotou), College of Engineering, Peking University, Baotou 014030, China
| | - Chang-Qiao Chi
- College of Engineering, Peking University, Beijing 100871, P. R. China
| | - Hui Fang
- College of Engineering, Peking University, Beijing 100871, P. R. China
| | - Jie-Liang Liang
- College of Engineering, Peking University, Beijing 100871, P. R. China
| | - She-Lian Lu
- College of Engineering, Peking University, Beijing 100871, P. R. China
| | - Guo-Li Lai
- College of Engineering, Peking University, Beijing 100871, P. R. China
- Institute of Engineering (Baotou), College of Engineering, Peking University, Baotou 014030, China
| | - Yue-Qin Tang
- College of Engineering, Peking University, Beijing 100871, P. R. China
- College of Architecture and Environment, Sichuan University, Chengdu, 610065, China
| | - Xiao-Lei Wu
- College of Engineering, Peking University, Beijing 100871, P. R. China
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12
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Ivanova AE, Kizilova AK, Kanat’eva AY, Kravchenko IK, Kurganov AA, Belyaev SS. A hydrocarbon-oxidizing acidophilic thermotolerant bacterial association from sulfur blocks. Microbiology (Reading) 2013. [DOI: 10.1134/s0026261713040048] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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13
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Lin J, Zuo J, Ji R, Chen X, Liu F, Wang K, Yang Y. Methanogenic community dynamics in anaerobic co-digestion of fruit and vegetable waste and food waste. J Environ Sci (China) 2012; 24:1288-94. [PMID: 23513450 DOI: 10.1016/s1001-0742(11)60927-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
A lab-scale continuously-stirred tank reactor (CSTR), used for anaerobic co-digestion of fruit and vegetable waste (FVW) and food waste (FW) at different mixture ratios, was operated for 178 days at the organic loading rate of 3 kg VS (volatile solids)/(m3 x day). The dynamics of the Archaeal community and the correlations between environmental variables and methanogenic community structure were analyzed by polymerase chain reactions--denaturing gradient gel electrophoresis (PCR-DGGE) and redundancy analysis (RDA), respectively. PCR-DGGE results demonstrated that the mixture ratio of FVW to FW altered the community composition of Archaea. As the FVW/FW ratio increased, Methanoculleus, Methanosaeta and Methanosarcina became the predominant methanogens in the community. Redundancy analysis results indicated that the shift of the methanogenic community was significantly correlated with the composition of acidogenic products and methane production yield. Different mixture ratios of substrates led to different compositions of intermediate metabolites, which may affect the methanogenic community. These results suggested that the analysis of microbial communities could be used to diagnose anaerobic processes.
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Affiliation(s)
- Jia Lin
- State Key Joint Laboratory of Environment Simulation and Pollution Control (SKLESPC), School ofEnvironment, Tsinghua University, Beijing 100084, China.
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14
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Yeung CW, Woo M, Lee K, Greer CW. Characterization of the bacterial community structure of Sydney Tar Ponds sediment. Can J Microbiol 2011; 57:493-503. [PMID: 21635217 DOI: 10.1139/w11-032] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The Sydney Tar Ponds is one of the largest toxic waste sites in Canada. The bacterial diversity and abundance in the Sydney Tar Ponds sediment was examined using a 16S rRNA gene clone library and denaturing gradient gel electrophoresis (DGGE) with four different primer sets. The clone library was grouped into 19 phylotypes that could be divided into five phyla: Proteobacteria (56.9%), Actinobacteria (35%), Acidobacteria (4.9%), Firmicutes (2.4%), and Verrucomicrobia (0.8%). Members of the phyla Actinobacteria (represented mainly by Mycobacterium spp.) and Alphaproteobacteria (represented by Acidocella spp.) comprised the majority of the clone library. This study also revealed that the phylogenetic results obtained from clone library analysis and from DGGE analysis, with all the primer sets, showed some variability. However, similar Mycobacterium spp. and Acidocella spp. were found in all the different DGGE analyses, again suggesting that these two genera are dominant in the Sydney Tar Ponds sediment. In addition, DGGE analysis indicated that primer sets targeting the V3 region produced results that were the most similar to those obtained with the clone library.
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Affiliation(s)
- C William Yeung
- National Research Council Canada, Biotechnology Research Institute, Montréal, Canada
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15
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Lear G, Niyogi D, Harding J, Dong Y, Lewis G. Biofilm bacterial community structure in streams affected by acid mine drainage. Appl Environ Microbiol 2009; 75:3455-60. [PMID: 19363070 PMCID: PMC2687311 DOI: 10.1128/aem.00274-09] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2009] [Accepted: 04/01/2009] [Indexed: 11/20/2022] Open
Abstract
We examined the bacterial communities of epilithic biofilms in 17 streams which represented a gradient ranging from relatively pristine streams to streams highly impacted by acid mine drainage (AMD). A combination of automated ribosomal intergenic spacer analysis with multivariate analysis and ordination provided a sensitive, high-throughput method to monitor the impact of AMD on stream bacterial communities. Significant differences in community structure were detected among neutral to alkaline (pH 6.7 to 8.3), acidic (pH 3.9 to 5.7), and very acidic (pH 2.8 to 3.5) streams. DNA sequence analysis revealed that the acidic streams were generally dominated by bacteria related to the iron-oxidizing genus Gallionella, while the organisms in very acidic streams were less diverse and included a high proportion of acidophilic eukaryotes, including taxa related to the algal genera Navicula and Klebsormidium. Despite the presence of high concentrations of dissolved metals (e.g., Al and Zn) and deposits of iron hydroxide in some of the streams studied, pH was the most important determinant of the observed differences in bacterial community variability. These findings confirm that any restoration activities in such systems must focus on dealing with pH as the first priority.
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MESH Headings
- Bacteria/classification
- Bacteria/genetics
- Bacteria/isolation & purification
- Biodiversity
- Biofilms/growth & development
- Cluster Analysis
- DNA, Algal/chemistry
- DNA, Algal/genetics
- DNA, Bacterial/chemistry
- DNA, Bacterial/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- DNA, Ribosomal Spacer/chemistry
- DNA, Ribosomal Spacer/genetics
- Eukaryota/classification
- Eukaryota/genetics
- Eukaryota/isolation & purification
- Hydrogen-Ion Concentration
- Molecular Sequence Data
- Phylogeny
- Rivers/chemistry
- Rivers/microbiology
- Sequence Analysis, DNA
- Sequence Homology, Nucleic Acid
- Water Pollution, Chemical
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Affiliation(s)
- Gavin Lear
- The University of Auckland, New Zealand.
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16
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Molecular identification of species comprising an unusual biofilm from a groundwater treatment plant. ACTA ACUST UNITED AC 2006. [DOI: 10.1017/s1479050507002098] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
ABSTRACTOrica's groundwater treatment plant in Botany, NSW, Australia, was designed to remove and destroy volatile organic compounds from polluted groundwater and to treat the water for reuse on the Botany Industrial Park. The initial steps in this process involved acidification of the groundwater and air stripping. During this operation, very large quantities of a biofilm formed within the air stripper, necessitating weekly clean-outs. We investigated the composition of this biofilm using molecular methods. Total DNA extracted from biofilm material was used as a template for amplification of both bacterial 16 S ribosomal DNA (rDNA) and the eukaryotic rDNA internal transcribed spacer region. Cloning and sequencing of these products showed that the biofilm was composed primarily of a bacterium belonging to the genusAcidocella, a filamentous fungus (Trichoderma asperellum), and the ascomycetous yeastsPichia,CandidaandGeotrichum. This unusual biofilm was composed of acidophiles that were capable of rapidly generating large amounts of biomass under these conditions. When acidification of the groundwater ceased, the biofilm no longer formed.
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