1
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Anaerobic biodegradation of chloroform and dichloromethane with a Dehalobacter enrichment culture. Appl Environ Microbiol 2021; 88:e0197021. [PMID: 34936839 DOI: 10.1128/aem.01970-21] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Chloroform (CF) and dichloromethane (DCM) are among the more commonly identified chlorinated aliphatic compounds found in contaminated soil and groundwater. Complete dechlorination of CF has been reported under anaerobic conditions by microbes that respire CF to DCM and others that biodegrade DCM. The objectives of this study were to ascertain if a commercially available bioaugmentation enrichment culture (KB-1® Plus CF) uses an oxidative or fermentative pathway for biodegradation of DCM; and to determine if the products from DCM biodegradation can support organohalide respiration of CF to DCM in the absence of an exogenous electron donor. In various treatments with the KB-1® Plus CF culture to which 14C-CF was added, the predominant product was 14CO2, indicating that oxidation is the predominant pathway for DCM. Recovery of 14C-DCM when biodegradation was still in progress confirmed that CF first undergoes reductive dechlorination to DCM. 14C-labeled organic acids, including acetate and propionate, were also recovered, suggesting that synthesis of organic acids provides a sink for the electron equivalents from oxidation of DCM. When the biomass was washed to remove organic acids from prior additions of exogenous electron donor and only CF and DCM were added, the culture completely dechlorinated CF. The total amount of DCM added was not sufficient to provide the electron equivalents needed to reduce CF to DCM. Thus, the additional reducing power came via the DCM generated from CF reduction. Nevertheless, the rate of CF consumption was considerably slower in comparison to treatments that received an exogenous electron donor. IMPORTANCE Chloroform (CF) and dichloromethane (DCM) are among the more commonly identified chlorinated aliphatic compounds found in contaminated soil and groundwater. One way to address this problem is to add microbes to the subsurface that can biodegrade these compounds. While microbes are known that can accomplish this task, less is known about the pathways used under anaerobic conditions. Some use an oxidative pathway, resulting mainly in carbon dioxide. Others use a fermentative pathway, resulting in formation of organic acids. In this study, a commercially available bioaugmentation enrichment culture (KB-1® Plus CF) was evaluated using carbon-14 labelled chloroform. The main product formed was carbon dioxide, indicating the use of an oxidative pathway. The reducing power gained from oxidation was shown to support reductive dechlorination of CF to DCM. The results demonstrate the potential to achieve full dechlorination of CF and DCM to nonhazardous products that are difficult to identify in the field.
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2
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Mineralization versus fermentation: evidence for two distinct anaerobic bacterial degradation pathways for dichloromethane. ISME JOURNAL 2020; 14:959-970. [PMID: 31907367 DOI: 10.1038/s41396-019-0579-5] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2019] [Revised: 12/11/2019] [Accepted: 12/17/2019] [Indexed: 01/03/2023]
Abstract
Dichloromethane (DCM) is an anthropogenic pollutant with ozone destruction potential that is also formed naturally. Under anoxic conditions, fermentation of DCM to acetate and formate has been reported in axenic culture Dehalobacterium formicoaceticum, and to acetate, H2 and CO2 in mixed culture RM, which harbors the DCM degrader 'Candidatus Dichloromethanomonas elyunquensis'. RM cultures produced 28.1 ± 2.3 μmol of acetate from 155.6 ± 9.3 μmol DCM, far less than the one third (i.e., about 51.9 µmol) predicted based on the assumed fermentation model, and observed in cultures of Dehalobacterium formicoaceticum. Temporal metabolite analyses using gas chromatography-mass spectrometry (GC-MS) and nuclear magnetic resonance (NMR) spectroscopy revealed that no 13C-labeled acetate was formed in 13C-DCM-grown RM cultures, indicating acetate was not a direct product of DCM metabolism. The data were reconciled with DCM mineralization and H2 consumption via CO2 reduction to acetate and methane by homoacetogenic and methanogenic partner populations, respectively. In contrast, Dehalobacterium formicoaceticum produced 13C-labeled acetate and formate from 13C-DCM, consistent with a fermentation pathway. Free energy change calculations predicted that organisms with the mineralization pathway are the dominant DCM consumers in environments with H2 <100 ppmv. These findings have implications for carbon and electron flow in environments where DCM is introduced through natural production processes or anthropogenic activities.
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3
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Holland SI, Edwards RJ, Ertan H, Wong YK, Russell TL, Deshpande NP, Manefield MJ, Lee M. Whole genome sequencing of a novel, dichloromethane-fermenting Peptococcaceae from an enrichment culture. PeerJ 2019; 7:e7775. [PMID: 31592187 PMCID: PMC6778437 DOI: 10.7717/peerj.7775] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2019] [Accepted: 08/27/2019] [Indexed: 01/07/2023] Open
Abstract
Bacteria capable of dechlorinating the toxic environmental contaminant dichloromethane (DCM, CH2Cl2) are of great interest for potential bioremediation applications. A novel, strictly anaerobic, DCM-fermenting bacterium, "DCMF", was enriched from organochlorine-contaminated groundwater near Botany Bay, Australia. The enrichment culture was maintained in minimal, mineral salt medium amended with dichloromethane as the sole energy source. PacBio whole genome SMRTTM sequencing of DCMF allowed de novo, gap-free assembly despite the presence of cohabiting organisms in the culture. Illumina sequencing reads were utilised to correct minor indels. The single, circularised 6.44 Mb chromosome was annotated with the IMG pipeline and contains 5,773 predicted protein-coding genes. Based on 16S rRNA gene and predicted proteome phylogeny, the organism appears to be a novel member of the Peptococcaceae family. The DCMF genome is large in comparison to known DCM-fermenting bacteria. It includes an abundance of methyltransferases, which may provide clues to the basis of its DCM metabolism, as well as potential to metabolise additional methylated substrates such as quaternary amines. Full annotation has been provided in a custom genome browser and search tool, in addition to multiple sequence alignments and phylogenetic trees for every predicted protein, http://www.slimsuite.unsw.edu.au/research/dcmf/.
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Affiliation(s)
- Sophie I. Holland
- UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, New South Wales, Australia
| | - Richard J. Edwards
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia
| | - Haluk Ertan
- Department of Molecular Biology and Genetics, Istanbul University, Istanbul, Turkey
- School of Chemical Engineering, University of New South Wales, Sydney, New South Wales, Australia
| | - Yie Kuan Wong
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia
| | - Tonia L. Russell
- Ramaciotti Centre for Genomics, University of New South Wales, Sydney, New South Wales, Australia
| | - Nandan P. Deshpande
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia
| | - Michael J. Manefield
- UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, New South Wales, Australia
- School of Chemical Engineering, University of New South Wales, Sydney, New South Wales, Australia
| | - Matthew Lee
- UNSW Water Research Centre, School of Civil and Environmental Engineering, University of New South Wales, Sydney, New South Wales, Australia
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4
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Wright J, Kirchner V, Bernard W, Ulrich N, McLimans C, Campa MF, Hazen T, Macbeth T, Marabello D, McDermott J, Mackelprang R, Roth K, Lamendella R. Bacterial Community Dynamics in Dichloromethane-Contaminated Groundwater Undergoing Natural Attenuation. Front Microbiol 2017; 8:2300. [PMID: 29213257 PMCID: PMC5702783 DOI: 10.3389/fmicb.2017.02300] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Accepted: 11/07/2017] [Indexed: 01/05/2023] Open
Abstract
The uncontrolled release of the industrial solvent methylene chloride, also known as dichloromethane (DCM), has resulted in widespread groundwater contamination in the United States. Here we investigate the role of groundwater bacterial communities in the natural attenuation of DCM at an undisclosed manufacturing site in New Jersey. This study investigates the bacterial community structure of groundwater samples differentially contaminated with DCM to better understand the biodegradation potential of these autochthonous bacterial communities. Bacterial community analysis was completed using high-throughput sequencing of the 16S rRNA gene of groundwater samples (n = 26) with DCM contamination ranging from 0.89 to 9,800,000 μg/L. Significant DCM concentration-driven shifts in overall bacterial community structure were identified between samples, including an increase in the abundance of Firmicutes within the most contaminated samples. Across all samples, a total of 6,134 unique operational taxonomic units (OTUs) were identified, with 16 taxa having strong correlations with increased DCM concentration. Putative DCM degraders such as Pseudomonas, Dehalobacterium and Desulfovibrio were present within groundwater across all levels of DCM contamination. Interestingly, each of these taxa dominated specific DCM contamination ranges respectively. Potential DCM degrading lineages yet to be cited specifically as a DCM degrading organisms, such as the Desulfosporosinus, thrived within the most heavily contaminated groundwater samples. Co-occurrence network analysis revealed aerobic and anaerobic bacterial taxa with DCM-degrading potential were present at the study site. Our 16S rRNA gene survey serves as the first in situ bacterial community assessment of contaminated groundwater harboring DCM concentrations ranging over seven orders of magnitude. Diversity analyses revealed known as well as potentially novel DCM degrading taxa within defined DCM concentration ranges, indicating niche-specific responses of these autochthonous populations. Altogether, our findings suggest that monitored natural attenuation is an appropriate remediation strategy for DCM contamination, and that high-throughput sequencing technologies are a robust method for assessing the potential role of biodegrading bacterial assemblages in the apparent reduction of DCM concentrations in environmental scenarios.
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Affiliation(s)
- Justin Wright
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States.,Wright Labs, LLC, Huntingdon, PA, United States
| | - Veronica Kirchner
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States
| | - William Bernard
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States
| | - Nikea Ulrich
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States
| | - Christopher McLimans
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States
| | - Maria F Campa
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, TN, United States.,Biosciences Division, Oak Ridge National Laboratory (DOE), Oak Ridge, TN, United States.,Institute for a Secure and Sustainable Environment, University of Tennessee, Knoxville, TN, United States
| | - Terry Hazen
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, TN, United States.,Biosciences Division, Oak Ridge National Laboratory (DOE), Oak Ridge, TN, United States.,Institute for a Secure and Sustainable Environment, University of Tennessee, Knoxville, TN, United States.,Department of Microbiology, University of Tennessee, Knoxville, TN, United States.,Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, TN, United States.,Department of Earth and Planetary Sciences, University of Tennessee, Knoxville, TN, United States
| | | | | | | | - Rachel Mackelprang
- Department of Biology, California State University Northridge, Northridge, PA, United States
| | - Kimberly Roth
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States
| | - Regina Lamendella
- Lamendella Laboratory, Juniata College, Department of Biology, Huntingdon, PA, United States.,Wright Labs, LLC, Huntingdon, PA, United States
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5
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Chen G, Murdoch RW, Mack EE, Seger ES, Löffler FE. Complete Genome Sequence of Dehalobacterium formicoaceticum Strain DMC, a Strictly Anaerobic Dichloromethane-Degrading Bacterium. GENOME ANNOUNCEMENTS 2017; 5:e00897-17. [PMID: 28912314 PMCID: PMC5597755 DOI: 10.1128/genomea.00897-17] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Accepted: 07/26/2017] [Indexed: 01/17/2023]
Abstract
Dehalobacterium formicoaceticum utilizes dichloromethane as the sole energy source in defined anoxic bicarbonate-buffered mineral salt medium. The products are formate, acetate, inorganic chloride, and biomass. The bacterium's genome was sequenced using PacBio, assembled, and annotated. The complete genome consists of one 3.77-Mb circular chromosome harboring 3,935 predicted protein-encoding genes.
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Affiliation(s)
- Gao Chen
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Tennessee, USA
- Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Tennessee, USA
| | - Robert W Murdoch
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Tennessee, USA
| | - E Erin Mack
- Corporate Remediation Group, E. I. DuPont de Nemours and Company, Newark, Delaware, USA
| | | | - Frank E Löffler
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Tennessee, USA
- Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Tennessee, USA
- Department of Microbiology, University of Tennessee, Knoxville, Tennessee, USA
- Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, Tennessee, USA
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
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6
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Shestakova M, Sillanpää M. Removal of dichloromethane from ground and wastewater: a review. CHEMOSPHERE 2013; 93:1258-1267. [PMID: 23948610 DOI: 10.1016/j.chemosphere.2013.07.022] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2013] [Revised: 06/27/2013] [Accepted: 07/05/2013] [Indexed: 06/02/2023]
Abstract
Dichloromethane (DCM) is a toxic volatile compound which is found in the ground waters and wastewaters of the pharmaceutical, chemical, textile, metal-working and petroleum industries. DCM inhibits the growth of aquatic organisms, induces cancer in animals and is potentially carcinogenic for humans. This article aims to review existing water treatments for DCM removal, focusing on recent technological advances. Air stripping, adsorption and pervaporation were found to be effective in separating DCM from water with a process efficiency of about 99%, 90% and 80% respectively. Electrocatalysis over Cu-impregnated carbon fiber electrode, photo irradiation over TiO₂ and photo-Fenton process led to the complete decomposition of DCM. Aerobic and anaerobic water treatment achieved 99% and 95% removal of DCM respectively. The maximum efficiencies observed for acoustic cavitation, radiolysis and catalytic degradation of CH₂Cl₂ were 90%, 92% and 99% respectively. Ozonation and persulfate oxidation showed lower DCM degradation efficiencies, not exceeding 20%. Further combination of different water treatment methods will further increase DCM degradation efficiency.
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Affiliation(s)
- Marina Shestakova
- Laboratory of Green Chemistry, Faculty of Technology, Lappeenranta University of Technology, Sammonkatu 12, FI-50130 Mikkeli, Finland.
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Lee M, Low A, Zemb O, Koenig J, Michaelsen A, Manefield M. Complete chloroform dechlorination by organochlorine respiration and fermentation. Environ Microbiol 2011; 14:883-94. [PMID: 22118646 DOI: 10.1111/j.1462-2920.2011.02656.x] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Chloroform (CF, CHCl(3)) is a recalcitrant and toxic environmental pollutant. In this communication we report for the first time a microbial community capable of complete CF dechlorination by metabolic processes. Cultures derived from subsurface soil (3.5 m) could sustain complete dechlorination of CF at levels of least 360 µM at a rate of 40 µM per day. Scrutiny of CF dechlorination revealed two metabolic processes at work. First, CF was respired to dichloromethane (DCM, CH(2) Cl(2)), which was then fermented to acetate, hydrogen and carbon dioxide. Elevated hydrogen partial pressures were found to inhibit the fermentation process. Interspecies hydrogen transfer was observed in the form of methanogenesis and acetogenesis. This suggests that the dechlorination process required syntrophic partners to maintain low hydrogen partial pressures. (13)C-labelled DCM was employed to help elucidate the chemistry of the process and identify bacterial community members involved. CF respiring cultures, where emulsified vegetable oil was supplied as the electron donor and DCM fermenting cultures, where DCM was supplied as the sole organic carbon source were studied separately. Pyrosequencing of these cultures revealed Dehalobacter lineages as a predominant community member in both. Subsequent growth experiments confirmed that the proliferation of Dehalobacter was linked directly to both the dehalorespiration and dehalofermentation processes.
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Affiliation(s)
- Matthew Lee
- Centre for Marine Bioinnovation, School of Biotechnology and Biomolecular Science, University of New South Wales, Sydney, NSW 2052, Australia.
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8
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Magli A, Rainey FA, Leisinger T. Acetogenesis from dichloromethane by a two-component mixed culture comprising a novel bacterium. Appl Environ Microbiol 2010; 61:2943-9. [PMID: 16535097 PMCID: PMC1388551 DOI: 10.1128/aem.61.8.2943-2949.1995] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
A strictly anaerobic two-component culture able to grow exponentially with a doubling time of 20 h on a medium containing dichloromethane as the carbon and energy source was characterized. On a medium without sulfate, we observed (per mol of dichloromethane) a mass balance of 2 mol of chloride, 0.26 mol of acetate, 0.05 mol of formate, and 0.25 mol of carbon in biomass. One component of the culture, strain DMB, was identified by a 16S ribosomal DNA analysis as a Desulfovibrio sp. The other component, the gram-positive organism strain DMC, could not be isolated. It was possible, however, to associate strain DMC on a medium containing dichloromethane in a coculture with Acetobacterium woodii or Methanospirillum hungatei. Coculture of strain DMC with the Archaeon M. hungatei allowed us to specifically amplify by PCR the 16S rRNA gene of strain DMC. A phylogenetic analysis of the 16S ribosomal DNA sequence revealed that this organism groups within the radiation of the Clostridium-Bacillus subphylum and exhibits the highest levels of sequence similarity (89%) with Desulfotomaculum orientis and Desulfitobacterium dehalogenans. Since the novel organism strain DMC was able to grow acetogenically with dichloromethane when it was associated with one of three metabolically different partners and since, in contrast to strain DMB, strain DMC contained carbon monoxide dehydrogenase activity, this bacterium is responsible for both the dehalogenation of dichloromethane and the acetogenesis observed in the original two-component culture. The obligatory dependence of strain DMC on a partner during growth with dichloromethane is thought to stem from the need for a growth factor produced by the associated organism.
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9
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Lee MD, Odom JM, Buchanan RJ. New perspectives on microbial dehalogenation of chlorinated solvents: insights from the field. Annu Rev Microbiol 2001; 52:423-52. [PMID: 9891804 DOI: 10.1146/annurev.micro.52.1.423] [Citation(s) in RCA: 114] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
A variety of microbial dechlorination mechanisms have been demonstrated in laboratory microcosms, pure cultures, and in situ sedimentary environments. New perspectives on in situ processes from these efforts allow the design of more realistic bioremediation strategies that complement natural processes regardless of whether the strategy used is one of engineered accelerated bioremediation or natural attenuation. Since 1994 the scientific community has acquired considerable knowledge regarding natural attenuation of organochlorine compounds. Natural attenuation of chlorinated solvents has been documented at a number of field sites. Reductive dechlorination driven by co-contaminants or naturally occurring organics as substrates in combination with aerobic or co-metabolic degradation contains certain chlorinated solvent plumes. Although natural attenuation is not a panacea, at sites where it is applicable, it offers a scientifically sound, cost-effective method to remediate groundwater contaminated with chlorinated solvents.
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Affiliation(s)
- M D Lee
- Terra Systems Inc, Wilmington, Delaware 19809, USA.
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10
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Deipser A, Stegmann R. Biological degradation of VCCs and CFCs under simulated anaerobic landfill conditions in laboratory test digesters. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 1997; 4:209-216. [PMID: 19005803 DOI: 10.1007/bf02986348] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/1997] [Accepted: 06/27/1997] [Indexed: 05/27/2023]
Abstract
The biological degradation of volatile halogenated hydrocarbons (chlorocarbons (VCCs) and chlorofluorocarbons (CFCs)) was investigated under simulated conditions of landfills in laboratory test digesters. Fully halogenated VCCs (tetrachloroethylene, 1,1,1-trichloroethane, tetrachloromethane and dichloromethane) and CFCs (trichlorofluoromethane (R11), dichlorodifluoromethane (R12) and 1,1,2-trichlorotrifluoroethane (R113)) were degraded under anaerobic conditions in addition to the methanogenic bacteria in municipal solid waste (MSW) and organic wastes. These substances showed different degradation reactions in the simulated acid and methanephases of MSW landfills. It is assumed that R11 and R113 could be decomposed completely under methanogenic conditions. Dichlorofluoromethane (R21) was observed as the reductive degradation product of R11 and was further degraded during the methanephase, but hardly at all under acid conditions. Chlorodifluoromerhane (R22) as a degradation product of R12 was not degraded, even not in the methanephase. In the acidphase, R11 was the only CFC to be dechlorinated, although only in small quantities. The degradation products of tetrachloroethylene differed under the various environmental conditions. In the acidphase, 1,1-dichloroethylene was detected as the only dichloroethylene, whereas in particular cis-1,2-dichloroethylene but also trans-1,2-dichloroethylene, 1,1-dichloroethylene and vinyl chloride could be detected as metabolites in the methanephase. Dichloromethane and chloroethane, as metabolites of 1,1,1-trichloroethane, could hardly be degraded at all in the acidphase. The degradation of VCCs and CFCs is largely independent of the substrate used. The investigations have demonstrated that the measured biodegradation rates (0.3-15 mg/m(3) (material vol)./h) cannot be improved considerably since they are limited by the inhibiting effect of the substances and their degradation products.
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Affiliation(s)
- A Deipser
- Department of Waste Management, Technical University of Hamburg-Harburg, Helmholtzstrasse 27, D-68723, Schwetzingen, Germany
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11
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Abstract
During the past year, the range of environmentally relevant chlorinated aliphatic compounds known to serve as growth substrates for pure cultures of bacteria has been extended and novel reactions for the aerobic co-metabolic transformation of chloroaliphatics have been reported. The biochemistry of chloroaliphatics degradation in the new aerobic isolates is still unexplored, but progress has been made in understanding some of the anaerobic dehalogenation reactions.
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Affiliation(s)
- T Leisinger
- Institute of Microbiology, ETH.Zentrum LFV, Zürich, Switzerland.
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12
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Wild A, Hermann R, Leisinger T. Isolation of an anaerobic bacterium which reductively dechlorinates tetrachloroethene and trichloroethene. Biodegradation 1996; 7:507-11. [PMID: 9188197 DOI: 10.1007/bf00115297] [Citation(s) in RCA: 81] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
Strain TEA, a strictly anaerobic, motile rod with one to four lateral flagella and a crystalline surface layer was isolated from a mixed culture that completely reduces chlorinated ethenes to ethene. The organism coupled reductive dehalogenation of tetrachloroethene or trichloroethene to cis-1,2-dichloroethene to growth, using molecular hydrogen as the electron donor. It was unable to grow fermentatively or in the presence of tri- or tetrachloroethene with glucose, pyruvate, lactate, acetate or formate. The 16S rDNA sequence of strain TEA was 99.7% identical to that of Dehalobacter restrictus. The two organisms thus are representatives of the same species or the same genus within the Bacillus/Clostridium subphylum of the gram-positive bacteria.
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Affiliation(s)
- A Wild
- Institute of Microbiology, Swiss Federal Institute of Technology, ETH-Zentrum, Zürich, Switzerland
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13
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Dichloromethane as the sole carbon source forHyphomicrobium sp. strain DM2 under denitrification conditions. Biodegradation 1995. [DOI: 10.1007/bf00700462] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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14
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Leisinger T, Braus-Stromeyer SA. Bacterial growth with chlorinated methanes. ENVIRONMENTAL HEALTH PERSPECTIVES 1995; 103 Suppl 5:33-6. [PMID: 8565906 PMCID: PMC1519288 DOI: 10.1289/ehp.95103s433] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Chlorinated methanes are important industrial chemicals and significant environmental pollutants. While the highly chlorinated methanes, trichloromethane and tetrachloromethane, are not productively metabolized by bacteria, chloromethane and dichloromethane are used by both aerobic and anaerobic methylotrophic bacteria as carbon and energy sources. Some of the dehalogenation reactions involved in the utilization of the latter two compounds have been elucidated. In a strictly anaerobic acetogenic bacterium growing with chloromethane, an inducible enzyme forming methyltetrahydrofolate and chloride from chloromethane and tetrahydrofolate catalyzes dehalogenation of the growth substrate. A different mechanism for the nucleophilic displacement of chloride is observed in aerobic methylotrophic bacteria utilizing dichloromethane as the sole carbon and energy source. These organisms possess the enzyme dichloromethane dehalogenase which, in a glutathione-dependent reaction, converts dichloromethane to inorganic chloride and formaldehyde, a central metabolite of methylotrophic growth. Sequence comparisons have shown that bacterial dichloromethane dehalogenases belong to the glutathione S-transferase enzyme family, and within this family to class Theta. The dehalogenation reactions underlying aerobic utilization of chloromethane by a pure culture and anaerobic growth with dichloromethane by an acetogenic mixed culture are not known. It appears that they are based on mechanisms other than nucleophilic attack by tetrahydrofolate or glutathione.
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Affiliation(s)
- T Leisinger
- Mikrobiologisches Institut ETH, ETH-Zentrum Zürich, Switzerland
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15
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Metabolism and cometabolism of halogenated C-1 and C-2 hydrocarbons. ACTA ACUST UNITED AC 1995. [DOI: 10.1016/s0079-6352(06)80028-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/14/2023]
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16
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Wild AP, Winkelbauer W, Leisinger T. Anaerobic dechlorination of trichloroethene, tetrachloroethene and 1,2-dichloroethane by an acetogenic mixed culture in a fixed-bed reactor. Biodegradation 1995; 6:309-18. [PMID: 8580644 DOI: 10.1007/bf00695261] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
An anaerobic enrichment culture with glucose as the sole source of carbon and energy plus trichloroethene (TCE) as a potential electron acceptor was inoculated with material from a full size anaerobic charcoal reactor that biologically eliminated dichloromethane from contaminated groundwater (Stromeyer et al. 1991). In subcultures of this enrichment complete sequential transformation of 10 microM TCE via cis-dichloroethene and chloroethene to ethene was reproducibly observed. Maintenance of this activity on subcultivation required the presence of TCE in the medium. The enrichment culture was used to inoculate an anaerobic fixed-bed reactor containing sintered glass Raschig elements as support material. The reactor had a total volume of 1780 ml and was operated at 20 degrees C in an up-flow mode with a flow rate of 50 ml/h. It was fed continuously with 2 mM glucose and 55 microM TCE. Glucose was converted to acetate as the major product and to a minor amount of methane; TCE was quantitatively dehalogenated to ethene. When, in addition to TCE, tetrachloroethene or 1,2-dichloroethane were added to the system, these compounds were also dehalogenated to ethene. In contrast, 1,1,1-trichloroethane was not dehalogenated, but at 40 microM severely inhibited acetogenesis and methanogenesis. When the concentration of TCE in the feed was raised to 220 microM, chloroethene transiently accumulated, but after an adaptation period ethene was again the only volatile product detected in the effluent. The volumetric degradation rate at this stage amounted to 6.2 mumol/l/h.(ABSTRACT TRUNCATED AT 250 WORDS)
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Affiliation(s)
- A P Wild
- Mikrobiologisches Institut ETH, ETH-Zentrum, CH-8092 Zürich, Switzerland
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Leisinger T, Bader R, Hermann R, Schmid-Appert M, Vuilleumier S. Microbes, enzymes and genes involved in dichloromethane utilization. Biodegradation 1994; 5:237-48. [PMID: 7765835 DOI: 10.1007/bf00696462] [Citation(s) in RCA: 62] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Dichloromethane (DCM) is efficiently utilized as a carbon and energy source by aerobic, Gram-negative, facultative methylotrophic bacteria. It also serves as a sole carbon and energy source for a nitrate-respiring Hyphomicrobium sp. and for a strictly anaerobic co-culture of a DCM-fermenting bacterium and an acetogen. The first step of DCM utilization by methylotrophs is catalyzed by DCM dehalogenase which, in a glutathione-dependent substitution reaction, forms inorganic chloride and S-chloromethyl glutathione. This unstable intermediate decomposes to glutathione, inorganic chloride and formaldehyde, a central metabolite of methylotrophic growth. Genetic studies on DCM utilization are beginning to shed some light on questions pertaining to the evolution of DCM dehalogenases and on the regulation of DCM dehalogenase expression. DCM dehalogenase belongs to the glutathione S-transferase supergene family. Analysis of the amino acid sequences of two bacterial DCM dehalogenases reveals 56% identity, and comparison of these sequences to those of glutathione S-transferases indicates a closer relationship to class Theta eukaryotic glutathione S-transferases than to a number of bacterial glutathione S-transferases whose sequences have recently become available. dcmA, the structural gene of the highly substrate-inducible DCM dehalogenase, is carried in most DCM utilizing methylotrophs on large plasmids. In Methylobacterium sp. DM4 its expression is governed by dcmR, a regulatory gene located upstream of dcmA, dcmR encodes a trans-acting factor which negatively controls DCM dehalogenase formation at the transcriptional level. Our working model thus assumes that the dcmR product is a repressor which, in the absence of DCM, binds to the promoter region of dcmA and thereby inhibits initiation of transcription.
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Affiliation(s)
- T Leisinger
- Mikrobiologisches Institut ETH, ETH-Zentrum, Zürich, Switzerland
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Stucki G, Thüer M. Increased removal capacity for 1,2-dichloroethane by biological modification of the granular activated carbon process. Appl Microbiol Biotechnol 1994; 42:167-72. [PMID: 7765815 DOI: 10.1007/bf00170241] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
The removal of 5 mg l-1 1,2-dichloroethane [(CH2Cl)2] was studied in two granular activated carbon (GAC) reactors run with hydraulic retention times of below 1 h. One reactor was operated abiotically. The other one was inoculated with microorganisms able to degrade (CH2Cl)2. While the (CH2Cl)2-adsorption capacity of the non-inoculated GAC reactor was exhausted after 20 days, it apparently did not exhaust for at least 170 experimental days in the biologically activated system because (CH2Cl)2 was removed to over 95% as a result of the microbial degradation. The biodegradation was quantified: during the passage through the biologically activated GAC reactor, (CH2Cl)2 (5 +/- 1 mg l-1) disappeared, chloride ions (3.3 +/- 0.2 mg l-1) were produced, and oxygen (4 to 6 mg l-1) was consumed. Removal of 30% of GAC at the entrance of the reactor, which visibly carried most of the biomass, and its replacement by virgin GAC at the end of the column did not change the apparent (CH2Cl)2 removal capacity of the GAC column, indicating that still enough biomass was available to degrade most of the chemical fed. After the addition of the virgin carbon, the effluent concentration fell for a short period of time from about 200 micrograms l-1 to below 100 micrograms l-1, indicating partial adsorption of the non-degraded (CH2Cl)2 at the end of the reactor by the virgin carbon. Thus, the modification of the adsorption process by inoculation and maintenance of bacteria with special degradation capabilities resulted in a lower consumption of GAC and thus led to an extended service life of the GAC columns.
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Affiliation(s)
- G Stucki
- Environmental Process Engineering, Ciba-Geigy AG, Switzerland
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Florencio L, Field JA, Lettinga G. Importance of cobalt for individual trophic groups in an anaerobic methanol-degrading consortium. Appl Environ Microbiol 1994; 60:227-34. [PMID: 8117078 PMCID: PMC201293 DOI: 10.1128/aem.60.1.227-234.1994] [Citation(s) in RCA: 55] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
Methanol is an important anaerobic substrate in industrial wastewater treatment and the natural environment. Previous studies indicate that cobalt greatly stimulates methane formation during anaerobic treatment of methanolic wastewaters. To evaluate the effect of cobalt in a mixed culture, a sludge with low background levels of cobalt was cultivated in an upflow anaerobic sludge blanket reactor. Specific inhibitors in batch assays were then utilized to study the effect of cobalt on the growth rate and activity of different microorganisms involved in the anaerobic degradation of methanol. Only methylotrophic methanogens and acetogens were stimulated by cobalt additions, while the other trophic groups utilizing downstream intermediates, H2-CO2 or acetate, were largely unaffected. The optimal concentration of cobalt for the growth and activity of methanol-utilizing methanogens and acetogens was 0.05 mg liter-1. The higher requirement of cobalt is presumably due to the previously reported production of unique corrinoid-containing enzymes (or coenzymes) by direct utilizers of methanol. This distinctly high requirement of cobalt by methylotrophs should be considered during methanolic wastewater treatment. Methylotroph methanogens presented a 60-fold-higher affinity for methanol than acetogens. This result in combination with the fact that acetogens grow slightly faster than methanogens under optimal cobalt conditions indicates that acetogens can outcompete methanogens only when reactor methanol and cobalt concentrations are high, provided enough inorganic carbon is available.
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Affiliation(s)
- L Florencio
- Department of Environmental Technology, Wageningen Agricultural University, The Netherlands
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Dolfing J, van den Wijngaard AJ, Janssen DB. Microbiological aspects of the removal of chlorinated hydrocarbons from air. Biodegradation 1993; 4:261-82. [PMID: 7764923 DOI: 10.1007/bf00695974] [Citation(s) in RCA: 56] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Chlorinated hydrocarbons are widely used synthetic chemicals that are frequently present in industrial emissions. Bacterial degradation has been demonstrated for several components of this class of compounds. Structural features that affect the degradability include the number of chlorine atoms and the presence of oxygen substituents. Biological removal from waste streams of compounds that serve as a growth substrate can relatively easily be achieved. Substrates with more chlorine substituents can be converted co-metabolically by oxidative routes. The microbiological principles that influence the biodegradability of chlorinated hydrocarbons are described. A number of factors that will determine the performance of microorganisms in systems for waste gas treatment is discussed. Pilot plant evaluations, including economics, of a biological trickling filter for the treatment of dichloromethane containing waste gas indicate that at least for this compound biological treatment is cost effective.
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Affiliation(s)
- J Dolfing
- Department of Biochemistry, University of Groningen, The Netherlands
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Braus-Stromeyer SA, Hermann R, Cook AM, Leisinger T. Dichloromethane as the sole carbon source for an acetogenic mixed culture and isolation of a fermentative, dichloromethane-degrading bacterium. Appl Environ Microbiol 1993; 59:3790-7. [PMID: 8285685 PMCID: PMC182533 DOI: 10.1128/aem.59.11.3790-3797.1993] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023] Open
Abstract
Dichloromethane (DCM) is utilized by the strictly anaerobic, acetogenic mixed culture DM as a sole source of carbon and energy for growth. Growth with DCM was linear, and cell suspensions of the culture degraded DCM with a specific activity of 0.47 mkat/kg of protein. A mass balance of 2 mol of chloride and 0.42 mol of acetate per mol of DCM was observed. The dehalogenation reaction showed similar specific activities under both anaerobic and aerobic conditions. Radioactivity from [14C]DCM in cell suspensions was recovered largely as 14CO2 (58%), [14C]acetate (23%), and [14C]formate (11%), which subsequently disappeared. This suggested that formate is a major intermediate in the pathway from DCM to acetate. Efforts to isolate from culture DM a pure culture capable of anaerobic growth with DCM were unsuccessful, although overall acetogenesis and the partial reactions are thermodynamically favorable. We then isolated bacterial strains DMA, a strictly anaerobic, gram-positive, endospore-forming rod, and DMB, a strictly anaerobic, gram-negative, endospore-forming homoacetogen, from culture DM. Both strain DMB and Methanospirillum hungatei utilized formate as a source of carbon and energy. Coculture of strain DMA with either M. hungatei or strain DMB in solid medium with DCM as the sole added source of carbon and energy was observed. These data support a tentative scheme for the acetogenic fermentation of DCM involving interspecies formate transfer from strain DMA to the acetogenic bacterium DMB or to the methanogen M. hungatei.
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