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Bacterial Biological Factories Intended for the Desulfurization of Petroleum Products in Refineries. FERMENTATION-BASEL 2023. [DOI: 10.3390/fermentation9030211] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023]
Abstract
The removal of sulfur by deep hydrodesulfurization is expensive and environmentally unfriendly. Additionally, sulfur is not separated completely from heterocyclic poly-aromatic compounds. In nature, several microorganisms (Rhodococcus erythropolis IGTS8, Gordonia sp., Bacillus sp., Mycobacterium sp., Paenibacillus sp. A11-2 etc.) have been reported to remove sulfur from petroleum fractions. All these microbes remove sulfur from recalcitrant organosulfur compounds via the 4S pathway, showing potential for some organosulfur compounds only. Activity up to 100 µM/g dry cell weights is needed to meet the current demand for desulfurization. The present review describes the desulfurization capability of various microorganisms acting on several kinds of sulfur sources. Genetic engineering approaches on Gordonia sp. and other species have revealed a variety of good substrate ranges of desulfurization, both for aliphatic and aromatic organosulfur compounds. Whole genome sequence analysis and 4S pathway inhibition by a pTeR group inhibitor have also been discussed. Now, emphasis is being placed on how to commercialize the microbes for industrial-level applications by incorporating biodesulfurization into hydrodesulfurization systems. Thus, this review summarizes the potentialities of microbes for desulfurization of petroleum. The information included in this review could be useful for researchers as well as the economical commercialization of bacteria in petroleum industries.
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2
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Shaw DK, Sekar J, Ramalingam PV. Recent insights into oceanic dimethylsulfoniopropionate biosynthesis and catabolism. Environ Microbiol 2022; 24:2669-2700. [PMID: 35611751 DOI: 10.1111/1462-2920.16045] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2021] [Revised: 05/07/2022] [Accepted: 05/09/2022] [Indexed: 11/29/2022]
Abstract
Dimethylsulfoniopropionate (DMSP), a globally important organosulfur compound is produced in prodigious amounts (2.0 Pg sulfur) annually in the marine environment by phytoplankton, macroalgae, heterotrophic bacteria, some corals and certain higher plants. It is an important marine osmolyte and a major precursor molecule for the production of climate-active volatile gas dimethyl sulfide (DMS). DMSP synthesis take place via three pathways: a transamination 'pathway-' in some marine bacteria and algae, a Met-methylation 'pathway-' in angiosperms and bacteria and a decarboxylation 'pathway-' in the dinoflagellate, Crypthecodinium. The enzymes DSYB and TpMMT are involved in the DMSP biosynthesis in eukaryotes while marine heterotrophic bacteria engage key enzymes such as DsyB and MmtN. Several marine bacterial communities import DMSP and degrade it via cleavage or demethylation pathways or oxidation pathway, thereby generating DMS, methanethiol, and dimethylsulfoxonium propionate, respectively. DMSP is cleaved through diverse DMSP lyase enzymes in bacteria and via Alma1 enzyme in phytoplankton. The demethylation pathway involves four different enzymes, namely DmdA, DmdB, DmdC and DmdD/AcuH. However, enzymes involved in the oxidation pathway have not been yet identified. We reviewed the recent advances on the synthesis and catabolism of DMSP and enzymes that are involved in these processes.
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Affiliation(s)
- Deepak Kumar Shaw
- Microbiology Lab, Department of Biotechnology, M. S. Swaminathan Research Foundation, Taramani, Chennai, 600113, Tamil Nadu, India
| | - Jegan Sekar
- Microbiology Lab, Department of Biotechnology, M. S. Swaminathan Research Foundation, Taramani, Chennai, 600113, Tamil Nadu, India
| | - Prabavathy Vaiyapuri Ramalingam
- Microbiology Lab, Department of Biotechnology, M. S. Swaminathan Research Foundation, Taramani, Chennai, 600113, Tamil Nadu, India
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3
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Effects of two-species probiotic combinations on production performance at peak lay, sulfur compounds in manure, and selected serum profile. J APPL POULTRY RES 2022. [DOI: 10.1016/j.japr.2022.100234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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4
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Bu H, Carvalho G, Yuan Z, Bond P, Jiang G. Biotrickling filter for the removal of volatile sulfur compounds from sewers: A review. CHEMOSPHERE 2021; 277:130333. [PMID: 33780683 DOI: 10.1016/j.chemosphere.2021.130333] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 03/14/2021] [Accepted: 03/15/2021] [Indexed: 06/12/2023]
Abstract
Volatile sulfur compounds (VSCs) were identified as the dominant priority odorants emitted from sewers, including hydrogen sulfide (H2S), methyl mercaptan (MM), dimethyl disulfide (DMDS) and dimethyl sulfide (DMS). Biotrickling filter (BTF) is a widely-applied technology for odour abatement in sewers because of its relatively low operating cost and efficient H2S removal. The authors review the mechanisms and performance of BTF for the removal of these four VSCs, and discuss the key influencing factors including of empty bed residence time (EBRT), pH, temperature, nutrients, water content, trickling operation and packing materials. Besides, measures to improve the VSCs removal in BTF are proposed in the context of key influencing factors. Finally, the review assesses the new challenges of BTF for sewer emissions treatment, namely with respect to the performance of BTF for greenhouse gases (GHG) treatment.
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Affiliation(s)
- Hao Bu
- Advanced Water Management Centre, The University of Queensland, QLD, Australia
| | - Gilda Carvalho
- Advanced Water Management Centre, The University of Queensland, QLD, Australia
| | - Zhiguo Yuan
- Advanced Water Management Centre, The University of Queensland, QLD, Australia
| | - Philip Bond
- School of Biomedical Sciences, Queensland University of Technology, QLD, Australia
| | - Guangming Jiang
- School of Civil, Mining & Environmental Engineering, University of Wollongong, NSW, Australia.
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5
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Song D, Zhang Y, Liu J, Zhong H, Zheng Y, Zhou S, Yu M, Todd JD, Zhang XH. Metagenomic Insights Into the Cycling of Dimethylsulfoniopropionate and Related Molecules in the Eastern China Marginal Seas. Front Microbiol 2020; 11:157. [PMID: 32132981 PMCID: PMC7039863 DOI: 10.3389/fmicb.2020.00157] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Accepted: 01/22/2020] [Indexed: 11/13/2022] Open
Abstract
The microbial cycling of dimethylsulfoniopropionate (DMSP) and its gaseous catabolites dimethylsulfide (DMS) and methanethiol (MeSH) are important processes in the global sulfur cycle, marine microbial food webs, signaling pathways, atmospheric chemistry, and potentially climate regulation. Many functional genes have been identified and used to study the genetic potential of microbes to produce and catabolize these organosulfur compounds in different marine environments. Here, we sampled seawater, marine sediment and hydrothermal sediment, and polymetallic sulfide in the eastern Chinese marginal seas and analyzed their microbial communities for the genetic potential to cycle DMSP, DMS, and MeSH using metagenomics. DMSP was abundant in all sediment samples, but was fivefold less prominent in those from hydrothermal samples. Indeed, Yellow Sea (YS) sediment samples had DMSP concentrations two orders of magnitude higher than in surface water samples. Bacterial genetic potential to synthesize DMSP (mainly in Rhodobacteraceae bacteria) was far higher than for phytoplankton in all samples, but particularly in the sediment where no algal DMSP synthesis genes were detected. Thus, we propose bacteria as important DMSP producers in these marine sediments. DMSP catabolic pathways mediated by the DMSP lyase DddP (prominent in Pseudomonas and Mesorhizobium bacteria) and DMSP demethylase DmdA enzymes (prominent in Rhodobacteraceae bacteria) and MddA-mediated MeSH S-methylation were very abundant in Bohai Sea and Yellow Sea sediments (BYSS) samples. In contrast, the genetic potential for DMSP degradation was very low in the hydrothermal sediment samples-dddP was the only catabolic gene detected and in only one sample. However, the potential for DMS production from MeSH (mddA) and DMS oxidation (dmoA and ddhA) was relatively abundant. This metagenomics study does not provide conclusive evidence for DMSP cycling; however, it does highlight the potential importance of bacteria in the synthesis and catabolism of DMSP and related compounds in diverse sediment environments.
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Affiliation(s)
- Delei Song
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yunhui Zhang
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Ji Liu
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Haohui Zhong
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Yanfen Zheng
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Shun Zhou
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
| | - Min Yu
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
| | - Jonathan D. Todd
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Xiao-Hua Zhang
- MOE Key Laboratory of Marine Genetics and Breeding, College of Marine Life Sciences, Ocean University of China, Qingdao, China
- Laboratory for Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
- Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, China
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6
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Cheng HH, Liu CB, Lei YY, Chiu YC, Mangalindan J, Wu CH, Wu YJ, Whang LM. Biological treatment of DMSO-containing wastewater from semiconductor industry under aerobic and methanogenic conditions. CHEMOSPHERE 2019; 236:124291. [PMID: 31319306 DOI: 10.1016/j.chemosphere.2019.07.022] [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: 02/28/2019] [Revised: 06/16/2019] [Accepted: 07/02/2019] [Indexed: 06/10/2023]
Abstract
This study evaluated biological treatment of dimethyl sulfoxide (DMSO)-containing wastewater from semiconductor industry under aerobic and anaerobic conditions. DMSO concentration as higher as 1.5 g/L did not inhibit DMSO degradation efficiency in aerobic membrane bioreactor (MBR), while specific DMSO degradation rate at different initial DMSO-to-biomass (S0/X0) ratios from batch tests seemed to follow the Haldane-type kinetics. According to the microbial community analysis, Proteobacteria decreased from 88.2% to 26% as influent DMSO concentration increased, while Bacteroidetes, Parcubacteria, Saccharibacteria increased. Within the Bacteroidetes class, Flavobacterium and Laribacter genus significantly increased from less than 0.05%-26.8% and 13.4%, respectively, which might both be related to the DMS degradation. Hyphomicrobium and Thiobacillus, known as aerobic DMSO and DMS degraders, instead, decreased at higher DMSO conditions. Under methanogenic conditions, batch results implied DMSO concentrations higher than 3 g/L could be inhibitory, while DMSO and COD removal achieved 100% and 93%, respectively, using a pilot-scale anaerobic fluidized bed membrane bioreactor (AFMBR) with influent DMSO below 1.5 g/L. Results of terminal restriction fragment length polymorphism (TRFLP) analysis targeting on mcrA functional gene revealed that Methanomethylovorans sp. was dominant in AFMBR after 54 days of operation, indicating its importance on degrading DMS and mathanethiol (MT).
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Affiliation(s)
- Hai-Hsuan Cheng
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Cheng-Bing Liu
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Yuan-Yuan Lei
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Yi-Chu Chiu
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Jasan Mangalindan
- Department of Chemical Engineering and Chemistry, Mapúa Institute of Technology, 658 Muralla St., Intramuros, Manila, 1002, Philippines
| | - Chin-Hwa Wu
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Yi-Ju Wu
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan
| | - Liang-Ming Whang
- Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan; Sustainable Environment Research Center (SERC), National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan; Research Center for Energy Technology and Strategy (RCETS), National Cheng Kung University, No. 1, University Road, Tainan, 701, Taiwan.
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7
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Kröber E, Schäfer H. Identification of Proteins and Genes Expressed by Methylophaga thiooxydans During Growth on Dimethylsulfide and Their Presence in Other Members of the Genus. Front Microbiol 2019; 10:1132. [PMID: 31191477 PMCID: PMC6548844 DOI: 10.3389/fmicb.2019.01132] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Accepted: 05/03/2019] [Indexed: 12/19/2022] Open
Abstract
Dimethylsulfide is a volatile organic sulfur compound that provides the largest input of biogenic sulfur from the oceans to the atmosphere, and thence back to land, constituting an important link in the global sulfur cycle. Microorganisms degrading DMS affect fluxes of DMS in the environment, but the underlying metabolic pathways are still poorly understood. Methylophaga thiooxydans is a marine methylotrophic bacterium capable of growth on DMS as sole source of carbon and energy. Using proteomics and transcriptomics we identified genes expressed during growth on dimethylsulfide and methanol to refine our knowledge of the metabolic pathways that are involved in DMS and methanol degradation in this strain. Amongst the most highly expressed genes on DMS were the two methanethiol oxidases driving the oxidation of this reactive and toxic intermediate of DMS metabolism. Growth on DMS also increased expression of the enzymes of the tetrahydrofolate linked pathway of formaldehyde oxidation, in addition to the tetrahydromethanopterin linked pathway. Key enzymes of the inorganic sulfur oxidation pathway included flavocytochrome c sulfide dehydrogenase, sulfide quinone oxidoreductase, and persulfide dioxygenases. A sulP permease was also expressed during growth on DMS. Proteomics and transcriptomics also identified a number of highly expressed proteins and gene products whose function is currently not understood. As the identity of some enzymes of organic and inorganic sulfur metabolism previously detected in Methylophaga has not been characterized at the genetic level yet, highly expressed uncharacterized genes provide new targets for further biochemical and genetic analysis. A pan-genome analysis of six available Methylophaga genomes showed that only two of the six investigated strains, M. thiooxydans and M. sulfidovorans have the gene encoding methanethiol oxidase, suggesting that growth on methylated sulfur compounds of M. aminisulfidivorans is likely to involve different enzymes and metabolic intermediates. Hence, the pathways of DMS-utilization and subsequent C1 and sulfur oxidation are not conserved across Methylophaga isolates that degrade methylated sulfur compounds.
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Affiliation(s)
| | - Hendrik Schäfer
- School of Life Sciences, Gibbet Hill Campus, University of Warwick, Coventry, United Kingdom
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8
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Koch T, Dahl C. A novel bacterial sulfur oxidation pathway provides a new link between the cycles of organic and inorganic sulfur compounds. ISME JOURNAL 2018; 12:2479-2491. [PMID: 29930335 DOI: 10.1038/s41396-018-0209-7] [Citation(s) in RCA: 64] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2018] [Revised: 05/16/2018] [Accepted: 06/01/2018] [Indexed: 12/16/2022]
Abstract
Dimethylsulfide (DMS) plays a globally significant role in carbon and sulfur cycling and impacts Earth's climate because its oxidation products serve as nuclei for cloud formation. While the initial steps of aerobic DMS degradation and the fate of its carbon atoms are reasonably well documented, oxidation of the contained sulfur is largely unexplored. Here, we identified a novel pathway of sulfur compound oxidation in the ubiquitously occurring DMS-degrader Hyphomicrobium denitrificans XT that links the oxidation of the volatile organosulfur compound with that of the inorganic sulfur compound thiosulfate. DMS is first transformed to methanethiol from which sulfide is released and fully oxidized to sulfate. Comparative proteomics indicated thiosulfate as an intermediate of this pathway and pointed at a heterodisulfide reductase (Hdr)-like system acting as a sulfur-oxidizing entity. Indeed, marker exchange mutagenesis of hdr-like genes disrupted the ability of H. denitrificans to metabolize DMS and also prevented formation of sulfate from thiosulfate provided as an additional electron source during chemoorganoheterotrophic growth. Complementation with the hdr-like genes under a constitutive promoter rescued the phenotype on thiosulfate as well as on DMS. The production of sulfate from an organosulfur precursor via the Hdr-like system is previously undocumented and provides a new shunt in the biogeochemical sulfur cycle. Furthermore, our findings fill a long-standing knowledge gap in microbial dissimilatory sulfur metabolism because the Hdr-like pathway is abundant not only in chemoheterotrophs, but also in a wide range of chemo- and photolithoautotrophic sulfur oxidizers acting as key players in global sulfur cycling.
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Affiliation(s)
- Tobias Koch
- Institut für Mikrobiologie & Biotechnologie, Rheinische Friedrich-Wilhelms-Universität Bonn, Meckenheimer Allee 168, 53115, Bonn, Germany
| | - Christiane Dahl
- Institut für Mikrobiologie & Biotechnologie, Rheinische Friedrich-Wilhelms-Universität Bonn, Meckenheimer Allee 168, 53115, Bonn, Germany.
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9
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Louyakis AS, Gourlé H, Casaburi G, Bonjawo RME, Duscher AA, Foster JS. A year in the life of a thrombolite: comparative metatranscriptomics reveals dynamic metabolic changes over diel and seasonal cycles. Environ Microbiol 2017; 20:842-861. [DOI: 10.1111/1462-2920.14029] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2017] [Revised: 12/12/2017] [Accepted: 12/12/2017] [Indexed: 12/01/2022]
Affiliation(s)
- Artemis S. Louyakis
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
| | - Hadrien Gourlé
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
- Department of Animal Breeding and Genetics; Global Bioinformatics Centre, Swedish University of Agricultural Sciences; Uppsala Sweden
| | - Giorgio Casaburi
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
| | - Rachelle M. E. Bonjawo
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
| | - Alexandrea A. Duscher
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
| | - Jamie S. Foster
- Department of Microbiology and Cell Science; University of Florida, Space Life Sciences Lab; Merritt Island FL USA
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10
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Carrión O, Pratscher J, Curson ARJ, Williams BT, Rostant WG, Murrell JC, Todd JD. Methanethiol-dependent dimethylsulfide production in soil environments. ISME JOURNAL 2017; 11:2379-2390. [PMID: 28763056 PMCID: PMC5607357 DOI: 10.1038/ismej.2017.105] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2017] [Revised: 05/04/2017] [Accepted: 05/12/2017] [Indexed: 11/17/2022]
Abstract
Dimethylsulfide (DMS) is an environmentally important trace gas with roles in sulfur cycling, signalling to higher organisms and in atmospheric chemistry. DMS is believed to be predominantly produced in marine environments via microbial degradation of the osmolyte dimethylsulfoniopropionate (DMSP). However, significant amounts of DMS are also generated from terrestrial environments, for example, peat bogs can emit ~6 μmol DMS m−2 per day, likely via the methylation of methanethiol (MeSH). A methyltransferase enzyme termed ‘MddA’, which catalyses the methylation of MeSH, generating DMS, in a wide range of bacteria and some cyanobacteria, may mediate this process, as the mddA gene is abundant in terrestrial metagenomes. This is the first study investigating the functionality of MeSH-dependent DMS production (Mdd) in a wide range of aerobic environments. All soils and marine sediment samples tested produced DMS when incubated with MeSH. Cultivation-dependent and cultivation-independent methods were used to assess microbial community changes in response to MeSH addition in a grassland soil where 35.9% of the bacteria were predicted to contain mddA. Bacteria of the genus Methylotenera were enriched in the presence of MeSH. Furthermore, many novel Mdd+ bacterial strains were isolated. Despite the abundance of mddA in the grassland soil, the Mdd pathway may not be a significant source of DMS in this environment as MeSH addition was required to detect DMS at only very low conversion rates.
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Affiliation(s)
- Ornella Carrión
- School of Biological Sciences, University of East Anglia, Norwich, UK
| | - Jennifer Pratscher
- School of Environmental Sciences, University of East Anglia, Norwich, UK
| | - Andrew R J Curson
- School of Biological Sciences, University of East Anglia, Norwich, UK
| | - Beth T Williams
- School of Biological Sciences, University of East Anglia, Norwich, UK
| | - Wayne G Rostant
- School of Biological Sciences, University of East Anglia, Norwich, UK
| | - J Colin Murrell
- School of Environmental Sciences, University of East Anglia, Norwich, UK
| | - Jonathan D Todd
- School of Biological Sciences, University of East Anglia, Norwich, UK
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11
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Watson SB, Jüttner F. Malodorous volatile organic sulfur compounds: Sources, sinks and significance in inland waters. Crit Rev Microbiol 2016; 43:210-237. [DOI: 10.1080/1040841x.2016.1198306] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Susan B. Watson
- Watershed Hydrology and Ecology Research Division, Environment and Climate Change Canada, Canada Center for Inland Waters, Burlington, Ontario, Canada
| | - Friedrich Jüttner
- University of Zurich, Department of Limnology, Limnological Station, Kilchberg, Switzerland
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12
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Matusiak K, Oleksy M, Borowski S, Nowak A, Korczyński M, Dobrzański Z, Gutarowska B. The use of Yucca schidigera and microbial preparation for poultry manure deodorization and hygienization. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2016; 170:50-59. [PMID: 26797046 DOI: 10.1016/j.jenvman.2016.01.007] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2015] [Revised: 01/07/2016] [Accepted: 01/08/2016] [Indexed: 06/05/2023]
Abstract
The aim of this study was to determine the effectiveness of microbial preparation and Yucca schidigera in the removal of odorous volatile compounds from poultry manure as well as to evaluate antimicrobial properties of these amendments. It was demonstrated that the combined treatment of poultry manure (PM) with the microbial preparation and Y. schidigera extract can reduce the concentration of odorants by 58%-73%, depending on the tested compound. When Y. schidigera extract and the microbial preparation were applied at a time interval of 48 h, the deodorization efficiency was improved by 6-24%. Furthermore, Y. schidigera extract has antimicrobial properties, which affect poultry manure hygienization. It was found that when the microbial preparation was enriched with Lactobacillus plantarum, it became insensitive to the antimicrobial properties of Y. schidigera.
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Affiliation(s)
- Katarzyna Matusiak
- Lodz University of Technology, Faculty of Biotechnology and Food Science, Institute of Fermentation Technology and Microbiology, Poland
| | - Magdalena Oleksy
- Lodz University of Technology, Faculty of Biotechnology and Food Science, Institute of Fermentation Technology and Microbiology, Poland
| | - Sebastian Borowski
- Lodz University of Technology, Faculty of Biotechnology and Food Science, Institute of Fermentation Technology and Microbiology, Poland.
| | - Adriana Nowak
- Lodz University of Technology, Faculty of Biotechnology and Food Science, Institute of Fermentation Technology and Microbiology, Poland
| | - Mariusz Korczyński
- Wrocław University of Environmental and Life Sciences, Department of Environment Hygiene and Animal Welfare, Poland
| | - Zbigniew Dobrzański
- Wrocław University of Environmental and Life Sciences, Department of Environment Hygiene and Animal Welfare, Poland
| | - Beata Gutarowska
- Lodz University of Technology, Faculty of Biotechnology and Food Science, Institute of Fermentation Technology and Microbiology, Poland
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Dominance of Oscillospira and Bacteroides in the bacterial community associated with the degradation of high-concentration dimethyl sulfide under iron-reducing condition. ANN MICROBIOL 2016. [DOI: 10.1007/s13213-016-1207-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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14
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Eyice Ö, Namura M, Chen Y, Mead A, Samavedam S, Schäfer H. SIP metagenomics identifies uncultivated Methylophilaceae as dimethylsulphide degrading bacteria in soil and lake sediment. ISME JOURNAL 2015; 9:2336-48. [PMID: 25822481 PMCID: PMC4611497 DOI: 10.1038/ismej.2015.37] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/30/2014] [Revised: 02/01/2015] [Accepted: 02/09/2015] [Indexed: 02/07/2023]
Abstract
Dimethylsulphide (DMS) has an important role in the global sulphur cycle and atmospheric chemistry. Microorganisms using DMS as sole carbon, sulphur or energy source, contribute to the cycling of DMS in a wide variety of ecosystems. The diversity of microbial populations degrading DMS in terrestrial environments is poorly understood. Based on cultivation studies, a wide range of bacteria isolated from terrestrial ecosystems were shown to be able to degrade DMS, yet it remains unknown whether any of these have important roles in situ. In this study, we identified bacteria using DMS as a carbon and energy source in terrestrial environments, an agricultural soil and a lake sediment, by DNA stable isotope probing (SIP). Microbial communities involved in DMS degradation were analysed by denaturing gradient gel electrophoresis, high-throughput sequencing of SIP gradient fractions and metagenomic sequencing of phi29-amplified community DNA. Labelling patterns of time course SIP experiments identified members of the Methylophilaceae family, not previously implicated in DMS degradation, as dominant DMS-degrading populations in soil and lake sediment. Thiobacillus spp. were also detected in 13C-DNA from SIP incubations. Metagenomic sequencing also suggested involvement of Methylophilaceae in DMS degradation and further indicated shifts in the functional profile of the DMS-assimilating communities in line with methylotrophy and oxidation of inorganic sulphur compounds. Overall, these data suggest that unlike in the marine environment where gammaproteobacterial populations were identified by SIP as DMS degraders, betaproteobacterial Methylophilaceae may have a key role in DMS cycling in terrestrial environments.
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Affiliation(s)
- Özge Eyice
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Motonobu Namura
- MOAC Doctoral Training Centre, University of Warwick, Coventry, UK
| | - Yin Chen
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Andrew Mead
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Siva Samavedam
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Hendrik Schäfer
- School of Life Sciences, University of Warwick, Coventry, UK
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15
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Gutarowska B, Matusiak K, Borowski S, Rajkowska A, Brycki B. Removal of odorous compounds from poultry manure by microorganisms on perlite--bentonite carrier. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2014; 141:70-76. [PMID: 24768836 DOI: 10.1016/j.jenvman.2014.03.017] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2013] [Revised: 03/20/2014] [Accepted: 03/23/2014] [Indexed: 06/03/2023]
Abstract
Laboratory-scale experiments were conducted using poultry manure (PM) from a laying hen farm. Six strains of bacteria and one strain of yeast, selected on the base of the previous study, were investigated to evaluate their activity in the removal of odorous compounds from poultry manure: pure cultures of Bacillus subtilis subsp. spizizenii LOCK 0272, Bacillus megaterium LOCK 0963, Pseudomonas sp. LOCK 0961, Psychrobacter faecalis LOCK 0965, Leuconostoc mesenteroides LOCK 0964, Streptomyces violaceoruber LOCK 0967, and Candida inconspicua LOCK 0272 were suspended in water solution and applied for PM deodorization. The most active strains in the removal of volatile odorous compounds (ammonia, hydrogen sulfide, dimethylamine, trimethylamine, isobutyric acid) belonged to B. subtilis subsp. spizizenii, L. mesenteroides, C. inconspicua, and P. faecalis. In the next series of experiments, a mixed culture of all tested strains was immobilized on a mineral carrier being a mixture of perlite and bentonite (20:80 by weight). That mixed culture applied for PM deodorization was particularly active against ammonia and hydrogen sulfide, which were removed from the exhaust gas by 20.8% and 17.5%, respectively. The experiments also showed that during deodorization the microorganisms could reduce the concentrations of proteins and amino acids in PM. In particular, the mixed culture was active against cysteine and methionine, which were removed from PM by around 45% within 24 h of deodorization.
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Affiliation(s)
- Beata Gutarowska
- Technical University of Lodz, Institute of Fermentation Technology and Microbiology, Wólczańska 171/173, 90-924 Łódź, Poland
| | - Katarzyna Matusiak
- Technical University of Lodz, Institute of Fermentation Technology and Microbiology, Wólczańska 171/173, 90-924 Łódź, Poland
| | - Sebastian Borowski
- Technical University of Lodz, Institute of Fermentation Technology and Microbiology, Wólczańska 171/173, 90-924 Łódź, Poland.
| | - Aleksandra Rajkowska
- Technical University of Lodz, Institute of Fermentation Technology and Microbiology, Wólczańska 171/173, 90-924 Łódź, Poland
| | - Bogumił Brycki
- Adam Mickiewicz University, Department of Chemistry, Laboratory of Microbiocides Chemistry, Grunwaldzka 6, 60-780 Poznań, Poland
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Polypeptide Requirement of Multicomponent Monooxygenase DsoABCDEF for Dimethyl Sulfide Oxidizing Activity. Biosci Biotechnol Biochem 2014; 63:1765-71. [DOI: 10.1271/bbb.63.1765] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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17
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Giri BS, Pandey RA. Biological treatment of gaseous emissions containing dimethyl sulphide generated from pulp and paper industry. BIORESOURCE TECHNOLOGY 2013; 142:420-427. [PMID: 23748090 DOI: 10.1016/j.biortech.2013.04.100] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2013] [Revised: 04/25/2013] [Accepted: 04/25/2013] [Indexed: 06/02/2023]
Abstract
A bench scale biofilter packed with compost and wood chips seeded with potential DMS degrading culture (Bacillus sphaericus) could efficiently remove DMS from ambient air with removal efficiency (RE%) of 71 ± 11 at an effective bed contact time (EBCT) of 360 ± 20s with loading rate in the range of 4-28 gDMS/m(3)/h. Further, the same biofilter operated for the treatment of vent gas generated from a P&P industry indicated DMS removal of 61 ± 18% at optimal EBCT of 360 ± 25s with a loading rate in the range of 3-128 gDMS/m(3)/h.
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Affiliation(s)
- Balendu Shekher Giri
- Environmental Biotechnology Division, CSIR-National Environmental Engineering Research Institute (CSIR-NEERI), Nehru Marg, Nagpur 440020, India
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Kong W, Dolhi JM, Chiuchiolo A, Priscu J, Morgan-Kiss RM. Evidence of form II RubisCO (cbbM) in a perennially ice-covered Antarctic lake. FEMS Microbiol Ecol 2012; 82:491-500. [PMID: 22703237 DOI: 10.1111/j.1574-6941.2012.01431.x] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2012] [Revised: 06/10/2012] [Accepted: 06/11/2012] [Indexed: 11/27/2022] Open
Affiliation(s)
- Weidong Kong
- Department of Microbiology; Miami University; Oxford; OH; USA
| | - Jenna M. Dolhi
- Department of Microbiology; Miami University; Oxford; OH; USA
| | - Amy Chiuchiolo
- Department of Land Resources and Environmental Sciences; Montana State University; Bozeman; MT; USA
| | - John Priscu
- Department of Land Resources and Environmental Sciences; Montana State University; Bozeman; MT; USA
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Abstract
Sulfur is central to the metabolisms of many organisms that inhabit extreme environments. While biotic and abiotic cycling of organic sulfur compounds has been well documented in low-temperature anaerobic environments, cycling of organic sulfur in hydrothermal environments has received less attention. Recently published thermodynamic data have been used to estimate aqueous alkyl thiol and sulfide activities in deep-sea hydrothermal systems. Here we use geochemical mixing models to predict fluid compositions that result from mixing end-member hydrothermal fluid from the East Pacific Rise with bottom seawater. These fluid compositions are combined with estimates of methanethiol and dimethylsulfide activities to evaluate energy yields for potential organic sulfur-based metabolisms under hydrothermal conditions. Aerobic respiration has the highest energy yields (over -240 kJ/mol e⁻) at lower temperature; however, oxygen is unlikely to persist at high temperatures, restricting aerobic respiration to mesophilic communities. Nitrite reduction to N₂ has the highest energy yields at higher temperatures (greater than ∼40 °C). Nitrate and nitrite reduction to ammonium also yield significant energy (up to -70 kJ/mol e⁻). Much lower, but still feasible energy yields are calculated for sulfate reduction, disproportionation, and reduction with H₂. Organic compound family and the activity of methanethiol and dimethylsulfide were less important than metabolic strategy in determining overall energy yields. All metabolic strategies considered were exergonic within some portion of the mixing regime suggesting that organic sulfur-based metabolisms may be prevalent within deep-sea hydrothermal vent microbial communities.
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Affiliation(s)
- Karyn L Rogers
- Department of Geological Sciences, University of Missouri, Columbia, MO 65203, USA.
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21
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Ramírez M, Fernández M, Granada C, Le Borgne S, Gómez JM, Cantero D. Biofiltration of reduced sulphur compounds and community analysis of sulphur-oxidizing bacteria. BIORESOURCE TECHNOLOGY 2011; 102:4047-53. [PMID: 21216139 DOI: 10.1016/j.biortech.2010.12.018] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2010] [Revised: 12/01/2010] [Accepted: 12/02/2010] [Indexed: 05/07/2023]
Abstract
The present work aims to use a two-stage biotrickling filters for simultaneous treatment of hydrogen sulphide (H(2)S), methyl mercaptan (MM), dimethyl sulphide (DMS) and dimethyl disulphide (DMDS). The first biofilter was inoculated with Acidithiobacillus thiooxidans (BAT) and the second one with Thiobacillus thioparus (BTT). For separate feeds of reduced sulphur compounds (RSC), the elimination capacity (EC) order was DMDS>DMS>MM. The EC values were 9.8 g(MM-S)/m(3)/h (BTT; 78% removal efficiency (RE); empty bed residence time (EBRT) 58 s), 36 g(DMDS-S)/m(3)/h (BTT; 94.4% RE; EBRT 76 s) and 57.5 g(H2S-S)/m(3)/h (BAT; 92% RE; EBRT 59 s). For the simultaneous removal of RSC in BTT, an increase in the H(2)S concentration from 23 to 293 ppmv (EBRT of 59 s) inhibited the RE of DMS (97-84% RE), DMDS (86-76% RE) and MM (83-67% RE). In the two-stage biofiltration, the RE did not decrease on increasing the H(2)S concentration from 75 to 432 ppmv.
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Affiliation(s)
- Martín Ramírez
- Department of Chemical Engineering and Food Technologies, Faculty of Sciences, University of Cádiz, 11510 Puerto Real, Cádiz, Spain.
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Boden R, Kelly DP, Murrell JC, Schäfer H. Oxidation of dimethylsulfide to tetrathionate by Methylophaga thiooxidans sp. nov.: a new link in the sulfur cycle. Environ Microbiol 2011; 12:2688-99. [PMID: 20482741 DOI: 10.1111/j.1462-2920.2010.02238.x] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A new pathway of dimethylsulfide (DMS) metabolism was identified in a novel species of Gammaproteobacteria, Methylophaga thiooxidans sp. nov., in which tetrathionate (S(4)O(6)(2-)) was the end-product of DMS oxidation. Inhibitor evidence indicated that DMS degradation was initiated by demethylation, catalysed by a corrinoid demethylase. Thiosulfate was an intermediate, which was oxidized to tetrathionate by a cytochrome-linked thiosulfate dehydrogenase. Thiosulfate oxidation was coupled to ATP synthesis, and M. thiooxidans could also use exogenous thiosulfate as an energy source during chemolithoheterotrophic growth on DMS or methanol. Cultures grown on a variety of substrates oxidized thiosulfate, indicating that thiosulfate oxidation was constitutive. The observations have relevance to interactions among sulfur-metabolizing bacteria in the marine environment. The production of tetrathionate from an organosulfur precursor is previously undocumented and represents a potential step in the biogeochemical sulfur cycle, providing a 'shunt' across the cycle.
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Affiliation(s)
- Rich Boden
- Department of Biological Sciences, University of Warwick, Coventry CV4 7AL, UK
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Purification and characterization of dimethylsulfide monooxygenase from Hyphomicrobium sulfonivorans. J Bacteriol 2011; 193:1250-8. [PMID: 21216999 DOI: 10.1128/jb.00977-10] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Dimethylsulfide (DMS) is a volatile organosulfur compound which has been implicated in the biogeochemical cycling of sulfur and in climate control. Microbial degradation is a major sink for DMS. DMS metabolism in some bacteria involves its oxidation by a DMS monooxygenase in the first step of the degradation pathway; however, this enzyme has remained uncharacterized until now. We have purified a DMS monooxygenase from Hyphomicrobium sulfonivorans, which was previously isolated from garden soil. The enzyme is a member of the flavin-linked monooxygenases of the luciferase family and is most closely related to nitrilotriacetate monooxygenases. It consists of two subunits: DmoA, a 53-kDa FMNH₂-dependent monooxygenase, and DmoB, a 19-kDa NAD(P)H-dependent flavin oxidoreductase. Enzyme kinetics were investigated with a range of substrates and inhibitors. The enzyme had a K(m) of 17.2 (± 0.48) μM for DMS (k(cat) = 5.45 s⁻¹) and a V(max) of 1.25 (± 0.01) μmol NADH oxidized min⁻¹ (mg protein⁻¹). It was inhibited by umbelliferone, 8-anilinonaphthalenesulfonate, a range of metal-chelating agents, and Hg²(+), Cd²(+), and Pb²(+) ions. The purified enzyme had no activity with the substrates of related enzymes, including alkanesulfonates, aldehydes, nitrilotriacetate, or dibenzothiophenesulfone. The gene encoding the 53-kDa enzyme subunit has been cloned and matched to the enzyme subunit by mass spectrometry. DMS monooxygenase represents a new class of FMNH₂-dependent monooxygenases, based on its specificity for dimethylsulfide and the molecular phylogeny of its predicted amino acid sequence. The gene encoding the large subunit of DMS monooxygenase is colocated with genes encoding putative flavin reductases, homologues of enzymes of inorganic and organic sulfur compound metabolism, and enzymes involved in riboflavin synthesis.
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Hayes AC, Liss SN, Allen DG. Growth kinetics of Hyphomicrobium and Thiobacillus spp. in mixed cultures degrading dimethyl sulfide and methanol. Appl Environ Microbiol 2010; 76:5423-31. [PMID: 20562269 PMCID: PMC2918948 DOI: 10.1128/aem.00076-10] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2010] [Accepted: 06/10/2010] [Indexed: 11/20/2022] Open
Abstract
The growth kinetics of Hyphomicrobium spp. and Thiobacillus spp. on dimethyl sulfide (DMS) and methanol (in the case of Hyphomicrobium spp.) in an enrichment culture created from a biofilter cotreating DMS and methanol were studied. Specific growth rates of 0.099 h(-1) and 0.11 h(-1) were determined for Hyphomicrobium spp. and Thiobacillus spp., respectively, growing on DMS at pH 7. These specific growth rates are double the highest maximum specific growth rate for bacterial growth on DMS reported to date in the literature. When the pH of the medium was decreased from pH 7 to pH 5, the specific growth rate of Hyphomicrobium spp. decreased by 85%, with a near 100-fold decline in the yield of Hyphomicrobium 16S rRNA gene copies in the mixed culture. Through the same pH shift, the specific growth rate and 16S rRNA gene yield of Thiobacillus spp. remained similar. When methanol was used as a substrate, the specific growth rate of Hyphomicrobium spp. declined much less over the same pH range (up to 30%) while the yield of 16S rRNA gene copies declined by only 50%. Switching from an NH(4)(+)-N-based source to a NO(3)(-)-N-based source resulted in the same trends for the specific growth rate of these microorganisms with respect to pH. This suggests that pH has far more impact on the growth kinetics of these microorganisms than the nitrogen source. The results of these mixed-culture batch experiments indicate that the increased DMS removal rates observed in previous studies of biofilters cotreating DMS and methanol are due to the proliferation of DMS-degrading Hyphomicrobium spp. on methanol at pH levels not conducive to high growth rates on DMS alone.
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Affiliation(s)
- Alexander C. Hayes
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, 200 College Street, Toronto, Ontario, Canada M5S 3E5, School of Environmental Sciences, Ontario Agricultural College, University of Guelph, Guelph, Ontario, Canada N1G 2W1
| | - Steven N. Liss
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, 200 College Street, Toronto, Ontario, Canada M5S 3E5, School of Environmental Sciences, Ontario Agricultural College, University of Guelph, Guelph, Ontario, Canada N1G 2W1
| | - D. Grant Allen
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, 200 College Street, Toronto, Ontario, Canada M5S 3E5, School of Environmental Sciences, Ontario Agricultural College, University of Guelph, Guelph, Ontario, Canada N1G 2W1
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Raina JB, Dinsdale EA, Willis BL, Bourne DG. Do the organic sulfur compounds DMSP and DMS drive coral microbial associations? Trends Microbiol 2010; 18:101-8. [DOI: 10.1016/j.tim.2009.12.002] [Citation(s) in RCA: 131] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2009] [Revised: 12/01/2009] [Accepted: 12/04/2009] [Indexed: 10/20/2022]
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Schäfer H, Myronova N, Boden R. Microbial degradation of dimethylsulphide and related C1-sulphur compounds: organisms and pathways controlling fluxes of sulphur in the biosphere. JOURNAL OF EXPERIMENTAL BOTANY 2009; 61:315-334. [PMID: 20007683 DOI: 10.1093/jxb/erp355] [Citation(s) in RCA: 78] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Dimethylsulphide (DMS) plays a major role in the global sulphur cycle. It has important implications for atmospheric chemistry, climate regulation, and sulphur transport from the marine to the atmospheric and terrestrial environments. In addition, DMS acts as an info-chemical for a wide range of organisms ranging from micro-organisms to mammals. Micro-organisms that cycle DMS are widely distributed in a range of environments, for instance, oxic and anoxic marine, freshwater and terrestrial habitats. Despite the importance of DMS that has been unearthed by many studies since the early 1970s, the understanding of the biochemistry, genetics, and ecology of DMS-degrading micro-organisms is still limited. This review examines current knowledge on the microbial cycling of DMS and points out areas for future research that should shed more light on the role of organisms degrading DMS and related compounds in the biosphere.
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Hayes AC, Zhang Y, Liss SN, Allen DG. Linking performance to microbiology in biofilters treating dimethyl sulphide in the presence and absence of methanol. Appl Microbiol Biotechnol 2009; 85:1151-66. [DOI: 10.1007/s00253-009-2272-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2009] [Revised: 09/18/2009] [Accepted: 09/21/2009] [Indexed: 11/30/2022]
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28
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Shu CH, Chen CK. Enhanced removal of dimethyl sulfide from a synthetic waste gas stream using a bioreactor inoculated with Microbacterium sp. NTUT26 and Pseudomonas putida. J Ind Microbiol Biotechnol 2008; 36:95-104. [DOI: 10.1007/s10295-008-0476-9] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2008] [Accepted: 09/16/2008] [Indexed: 10/21/2022]
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Schäfer H. Isolation of Methylophaga spp. from marine dimethylsulfide-degrading enrichment cultures and identification of polypeptides induced during growth on dimethylsulfide. Appl Environ Microbiol 2007; 73:2580-91. [PMID: 17322322 PMCID: PMC1855583 DOI: 10.1128/aem.02074-06] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Dimethylsulfide (DMS)-degrading enrichment cultures were established from samples of coastal seawater, nonaxenic Emiliania huxleyi cultures, and mixed marine methyl halide-degrading enrichment cultures. Bacterial populations from a broad phylogenetic range were identified in the mixed DMS-degrading enrichment cultures by denaturing gradient gel electrophoresis (DGGE). Sequences of dominant DGGE bands were similar to those of members of the genera Methylophaga and Alcanivorax. Several closely related Methylophaga strains were obtained that were able to grow on DMS as the carbon and energy source. Roseobacter-related populations were detected in some of the enrichment cultures; however, none of the Roseobacter group isolates that were tested were able to grow on DMS. Oxidation of DMS by Methylophaga sp. strain DMS010 was not affected by addition of the inhibitor chloroform or methyl tert-butyl ether, suggesting that DMS metabolism may occur by a route different from those described for Thiobacillus species and other unidentified marine isolates. Addition of DMS and methanethiol to whole-cell suspensions of strain DMS010 induced oxygen uptake when strain DMS010 was grown on DMS but not in cells grown on methanol. The apparent K(m)s of strain DMS010 for DMS and for methanethiol were 2.1 and 4.6 microM, respectively, when grown on DMS. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis of the biomass of strain DMS010 and analysis of peptide bands by mass spectrometry techniques and N-terminal sequencing provided the first insight into the identity of polypeptides induced during growth on DMS. These included XoxF, a homolog of the large subunit of methanol dehydrogenase for which a biological role has not been identified previously.
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MESH Headings
- Bacterial Proteins/biosynthesis
- Base Sequence
- Chloroform/pharmacology
- DNA, Bacterial/analysis
- DNA, Bacterial/chemistry
- DNA, Bacterial/genetics
- DNA, Bacterial/isolation & purification
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Electrophoresis, Polyacrylamide Gel
- Enzyme Inhibitors/pharmacology
- Gene Expression Regulation, Bacterial
- Mass Spectrometry
- Methyl Ethers/pharmacology
- Molecular Sequence Data
- Oxygen Consumption
- Phylogeny
- Piscirickettsiaceae/classification
- Piscirickettsiaceae/genetics
- Piscirickettsiaceae/isolation & purification
- Piscirickettsiaceae/metabolism
- Proteome/analysis
- RNA, Ribosomal, 16S/genetics
- Seawater/microbiology
- Sequence Homology, Nucleic Acid
- Sulfhydryl Compounds/metabolism
- Sulfides/metabolism
- Water Microbiology
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Affiliation(s)
- Hendrik Schäfer
- Department of Biological Sciences, University of Warwick, Coventry, UK.
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Vila-Costa M, Del Valle DA, González JM, Slezak D, Kiene RP, Sánchez O, Simó R. Phylogenetic identification and metabolism of marine dimethylsulfide-consuming bacteria. Environ Microbiol 2007; 8:2189-200. [PMID: 17107560 DOI: 10.1111/j.1462-2920.2006.01102.x] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Microbial consumption is one of the main processes, along with photolysis and ventilation, that remove the biogenic trace gas dimethylsulfide (DMS) from the surface ocean. Although a few isolates of marine bacteria have been studied for their ability to utilize DMS, little is known about the characteristics or phylogenetic affiliation of DMS consumers in seawater. We enriched coastal and open-ocean waters with different carbon sources to stimulate different bacterial communities (glucose-consuming bacteria, methyl group-consuming bacteria and DMS consumers) in order to test how this affected DMS consumption and to examine which organisms might be involved. Dimethylsulfide consumption was greatly stimulated in the DMS addition treatments whereas there was no stimulation in the other treatments. Analysis of microbial DNA by two different techniques (sequenced bands from DGGE gels and clone libraries) showed that bacteria grown specifically with the presence of DMS were closely related to the genus Methylophaga. We also followed the fate of consumed DMS in some of the enrichments. Dimethylsulfide was converted mostly to DMSO in glucose or methanol enrichments, whereas it was converted mostly to sulfate in DMS enrichments, the latter suggesting use of DMS as a carbon and energy source. Our results indicate that unlike the biochemical precursor of DMS, dimethylsulfoniopropionate (DMSP), which is consumed by a broad spectrum of marine microorganisms, DMS seems to be utilized as a carbon and electron source by specialists. This is consistent with the usual observation that DMSP turns over at much higher rates than DMS.
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Affiliation(s)
- Maria Vila-Costa
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar--CMIMA (CSIC), 08003 Barcelona, Catalunya, Spain.
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Zwart JM, Kuenen J. Aerobic conversion of dimethyl sulfide and hydrogen sulfide by Methylophaga sulfidovorans: implications for modeling DMS conversion in a microbial mat. FEMS Microbiol Ecol 2006. [DOI: 10.1111/j.1574-6941.1997.tb00367.x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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32
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Kirkwood KM, Ebert S, Foght JM, Fedorak PM, Gray MR. Bacterial biodegradation of aliphatic sulfides under aerobic carbon- or sulfur-limited growth conditions. J Appl Microbiol 2005; 99:1444-54. [PMID: 16313417 DOI: 10.1111/j.1365-2672.2005.02723.x] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
AIMS To isolate bacteria capable of cleaving aliphatic carbon-sulfur bonds as potential biological upgrading catalysts for the reduction of molecular weight and viscosity in heavy crude oil. METHODS AND RESULTS Thirty-one bacterial strains isolated from enrichment cultures were able to biotransform model compounds representing the aliphatic sulfide bridges found in asphaltenes. Using gas chromatography and mass spectrometry, three types of attack were identified: alkyl chain degradation, allowing use as a carbon source; nonspecific sulfur oxidation; and sulfur-specific oxidation and carbon-sulfur bond cleavage, allowing use as a sulfur source. Di-n-octyl sulfide degradation produced octylthio- and octylsulfonyl-alkanoic acids, consistent with terminal oxidation followed by beta-oxidation reactions. Utilization of dibenzyl sulfide or 1,4-dithiane as a sulfur source was regulated by sulfate, indicating a sulfur-specific activity rather than nonspecific oxidation. Finally, several isolates were also able to use dibenzothiophene as a sulfur source, and this was the preferred organic sulfur substrate for one isolate. CONCLUSIONS The use of commercially available alkyl sulfides in enrichment cultures gave isolates that followed a range of metabolic pathways, not just sulfur-specific attack. SIGNIFICANCE AND IMPACT OF THE STUDY These results give new insight into biodegradation of organosulfur compounds from petroleum and for biotreatment of such compounds in chemical munitions.
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Affiliation(s)
- K M Kirkwood
- Department of Chemical and Materials Engineering, University of Alberta, Edmonton, AB, Canada
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Sabehi G, Loy A, Jung KH, Partha R, Spudich JL, Isaacson T, Hirschberg J, Wagner M, Béjà O. New insights into metabolic properties of marine bacteria encoding proteorhodopsins. PLoS Biol 2005; 3:e273. [PMID: 16008504 PMCID: PMC1175822 DOI: 10.1371/journal.pbio.0030273] [Citation(s) in RCA: 194] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2005] [Accepted: 06/06/2005] [Indexed: 11/19/2022] Open
Abstract
Proteorhodopsin phototrophy was recently discovered in oceanic surface waters. In an effort to characterize uncultured proteorhodopsin-exploiting bacteria, large-insert bacterial artificial chromosome (BAC) libraries from the Mediterranean Sea and Red Sea were analyzed. Fifty-five BACs carried diverse proteorhodopsin genes, and we confirmed the function of five. We calculate that proteorhodopsin-exploiting bacteria account for 13% of microorganisms in the photic zone. We further show that some proteorhodopsin-containing bacteria possess a retinal biosynthetic pathway and a reverse sulfite reductase operon, employed by prokaryotes oxidizing sulfur compounds. Thus, these novel phototrophs are an unexpectedly large and metabolically diverse component of the marine microbial surface water. Metagenomic analyses of the Mediterranean Sea and Red Sea estimate that proteorhodopsin genes are exploited by a surprisingly high percentage of bacteria. Experimental studies reveal metabolically diverse roles for these phototrophs.
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Affiliation(s)
- Gazalah Sabehi
- 1Department of Biology, Technion-Israel Institute of Technology, Haifa, Israel
| | - Alexander Loy
- 2Department of Microbial Ecology, University of Vienna, Austria
| | - Kwang-Hwan Jung
- 3Center for Membrane Biology, Department of Biochemistry and Molecular Biology, The University of Texas Medical School, Houston, Texas, United States of America
| | - Ranga Partha
- 3Center for Membrane Biology, Department of Biochemistry and Molecular Biology, The University of Texas Medical School, Houston, Texas, United States of America
| | - John L Spudich
- 3Center for Membrane Biology, Department of Biochemistry and Molecular Biology, The University of Texas Medical School, Houston, Texas, United States of America
| | - Tal Isaacson
- 4Department of Genetics, The Hebrew University of Jerusalem, Israel
| | | | - Michael Wagner
- 2Department of Microbial Ecology, University of Vienna, Austria
| | - Oded Béjà
- 1Department of Biology, Technion-Israel Institute of Technology, Haifa, Israel
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Rappert S, Müller R. Microbial degradation of selected odorous substances. WASTE MANAGEMENT (NEW YORK, N.Y.) 2005; 25:940-54. [PMID: 16140515 DOI: 10.1016/j.wasman.2005.07.015] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2004] [Revised: 06/06/2005] [Accepted: 07/20/2005] [Indexed: 05/04/2023]
Abstract
A biological odor treatment system has several advantages compared to conventional physical and chemical treatment technologies: (1) it is highly efficient in the treatment of waste gases characterized by high flow rates and low concentrations of contaminants; (2) the biodegradable pollutants are completely destroyed; and (3) it has low cost [Devinny, J.S., Deshusses, M.A., Webster, T.S., 1999. Biofiltration for Air Pollution Control. Lewis Publisher, New York, USA; Kennes, C., Veiga, M.C., 2001. Bioreactors for waste gas treatment. Kluwer Academic Publishers, London]. Because microorganisms play the major role in the successful biological odor treatment system, the understanding of microbial degradation of the key odorants is very important. This article describes the occurrence and the characteristics of selected key odorous compounds such as sulphides, amines, and pyrazine compounds. The article reviews available information in the literature and our experimental results of microbial degradation of the selected compounds. This is the first article that presents the isolation and characterization of bacterial strains that can utilize dimethyl trisulfide (DMTS), triethylamine (TEA) or different pyrazines, as a sole carbon and energy source. The biological degradation pathways of some of these compounds are postulated. Moreover, the influence of the presence of other odorous compounds in the culture medium on the degradation of the target odorous compounds by the isolated bacteria is presented. The information presented in the paper can be used to develop new systems for biological odor treatment.
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Affiliation(s)
- S Rappert
- Biotechnology II, Technical University Hamburg-Harburg, Denickestrasse 15, 21071 Hamburg, Germany
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Sipma J, Svitelskaya A, van der Mark B, Pol LWH, Lettinga G, Buisman CJN, Janssen AJH. Potentials of biological oxidation processes for the treatment of spent sulfidic caustics containing thiols. WATER RESEARCH 2004; 38:4331-4340. [PMID: 15556208 DOI: 10.1016/j.watres.2004.08.022] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2003] [Revised: 06/23/2004] [Accepted: 08/11/2004] [Indexed: 05/24/2023]
Abstract
This research focused on the biological treatment of sulfidic spent caustics from refineries, which contain mainly hydrogen sulfide, methanethiol (MT) and ethanethiol (ET). Also various organic compounds can be present such as BTEX. Biological oxidation of 2.5 mM MT in batch experiments occurred after MT was first auto-oxidized into dimethyldisulfide (DMDS) whereafter oxidation into sulfate was completed in 350 h. DMDS as sole substrate was completely oxidized within 40 h. Therefore, DMDS formation seems to play an important role in detoxification of MT. Biological oxidation of ET and buthanethiol was not successful in batch experiments. Complete oxidation of MT and ET was observed in flow-through reactor experiments. Simultaneous oxidation of sulfide and MT was achieved when treating a synthetic spent caustic, containing 10 mM sulfide and 2.5 mM MT, in a bubble column reactor with carrier material at a hydraulic retention time of 6 h. Addition of 7.5 mM phenol, a common pollutant of spent caustics, did not adversely affect the biological oxidation process and phenol was completely removed from the effluent. Finally, three different spent caustics solutions from refineries were successfully treated.
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Affiliation(s)
- Jan Sipma
- Sub-Department of Environmental Technology, Wageningen University, Bomenweg 2, P.O.Box 8129, 6700 EV Wageningen, The Netherlands
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Bentley R, Chasteen TG. Environmental VOSCs--formation and degradation of dimethyl sulfide, methanethiol and related materials. CHEMOSPHERE 2004; 55:291-317. [PMID: 14987929 DOI: 10.1016/j.chemosphere.2003.12.017] [Citation(s) in RCA: 149] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2003] [Revised: 12/12/2003] [Accepted: 12/17/2003] [Indexed: 05/07/2023]
Abstract
Volatile organic sulfur compounds (VOSCs) play a major role in the global sulfur cycle. Two components, dimethyl sulfide (DMS) and methanethiol (MT) are formed in large amounts by living systems (e.g. algae, bacteria, plants), particularly in marine environments. A major route to DMS is by action of a lyase enzyme on dimethylsulfoniopropionate (DMSP). DMSP has other roles, for instance as an osmoprotectant and cryoprotectant. Demethiolation of DMSP and other materials leads to MT. A major transport process is release of DMS from the oceans to the atmosphere. Oxidation of DMS in the atmosphere by hydroxyl and nitrate radicals produces many degradation products including CO2, COS, dimethyl sulfoxide, dimethyl sulfone, organic oxyacids of sulfur, and sulfate. These materials also have roles in biotic processes and there are complex metabolic interrelationships between some of them. This review emphasizes the chemical reactions of the organic sulfur cycle. For biotic reactions, details of relevant enzymes are provided when possible.
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Affiliation(s)
- Ronald Bentley
- Department of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA
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Visscher PT, Baumgartner LK, Buckley DH, Rogers DR, Hogan ME, Raleigh CD, Turk KA, Des Marais DJ. Dimethyl sulphide and methanethiol formation in microbial mats: potential pathways for biogenic signatures. Environ Microbiol 2003; 5:296-308. [PMID: 12662177 DOI: 10.1046/j.1462-2920.2003.00418.x] [Citation(s) in RCA: 76] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Mechanisms of dimethyl sulphide (DMS) and methanethiol (MT) production and consumption were determined in moderately hypersaline mats, Guerrero Negro, Mexico. Biological pathways regulated the net flux of DMS and MT as revealed by increases in flux resulting from decreased salinity, increased temperature and the removal of oxygen. Dimethylsulphoniopropionate (DMSP) was not present in these microbial mats and DMS and MT are probably formed by the reaction of photosynthetically produced low-molecular weight organic carbon and biogenic hydrogen sulphide derived from sulphate reduction. These observations provide an alternative to the notion that DMSP or S-containing amino acids are the dominant precursors of DMS in intertidal sediment systems. The major sink for DMS in the microbial mats was biological consumption, whereas photochemical oxidation to dimethylsulphoxide was the major sink for DMS in the overlying water column. Diel flux measurements demonstrated that significantly more DMS is released from the system during the night than during the day. The major consumers of DMS in the presence of oxygen were monooxygenase-utilizing bacteria, whereas under anoxic conditions, DMS was predominantly consumed by sulphate-reducing bacteria and methanethiol was consumed by methanogenic bacteria. Aerobic and anaerobic consumption rates of DMS were nearly identical. Mass balance estimates suggest that the consumption in the water column is likely to be smaller than net the flux from the mats. Volatile organic sulphur compounds are thus indicators of high rates of carbon fixation and sulphate reduction in these laminated sediment ecosystems, and atmospheric sulphur can be generated as a biogenic signature of the microbial mat community.
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Affiliation(s)
- Pieter T Visscher
- Department of Marine Sciences, University of Connecticut, Groton, CT 06340, USA.
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38
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McDevitt CA, Hugenholtz P, Hanson GR, McEwan AG. Molecular analysis of dimethyl sulphide dehydrogenase from Rhodovulum sulfidophilum: its place in the dimethyl sulphoxide reductase family of microbial molybdopterin-containing enzymes. Mol Microbiol 2002; 44:1575-87. [PMID: 12067345 DOI: 10.1046/j.1365-2958.2002.02978.x] [Citation(s) in RCA: 95] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Dimethyl sulphide dehydrogenase catalyses the oxidation of dimethyl sulphide to dimethyl sulphoxide (DMSO) during photoautotrophic growth of Rhodovulum sulfidophilum. Dimethyl sulphide dehydrogenase was shown to contain bis(molybdopterin guanine dinucleotide)Mo, the form of the pterin molybdenum cofactor unique to enzymes of the DMSO reductase family. Sequence analysis of the ddh gene cluster showed that the ddhA gene encodes a polypeptide with highest sequence similarity to the molybdopterin-containing subunits of selenate reductase, ethylbenzene dehydrogenase. These polypeptides form a distinct clade within the DMSO reductase family. Further sequence analysis of the ddh gene cluster identified three genes, ddhB, ddhD and ddhC. DdhB showed sequence homology to NarH, suggesting that it contains multiple iron-sulphur clusters. Analysis of the N-terminal signal sequence of DdhA suggests that it is secreted via the Tat secretory system in complex with DdhB, whereas DdhC is probably secreted via a Sec-dependent mechanism. Analysis of a ddhA mutant showed that dimethyl sulphide dehydrogenase was essential for photolithotrophic growth of Rv. sulfidophilum on dimethyl sulphide but not for chemo-trophic growth on the same substrate. Mutational analysis showed that cytochrome c2 mediated photosynthetic electron transfer from dimethyl sulphide dehydrogenase to the photochemical reaction centre, although this cytochrome was not essential for photoheterotrophic growth of the bacterium.
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Affiliation(s)
- Christopher A McDevitt
- Centre for Metals in Biology, Department of Microbiology and Parasitology, School of Molecular and Microbial Sciences, The University of Queensland, St Lucia 4072, Australia
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39
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Oxidation of organic and inorganic sulfur compounds by aerobic heterotrophic marine bacteria. ACTA ACUST UNITED AC 2002. [DOI: 10.1016/s0079-6352(02)80016-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
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Tang KW, Visscher PT, Dam HG. DMSP-consuming bacteria associated with the calanoid copepod Acartia tonsa (Dana). JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY 2001; 256:185-198. [PMID: 11164862 DOI: 10.1016/s0022-0981(00)00314-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
DMSP-consuming bacteria (DCB) were recovered from the body and fecal pellets of the copepod Acartia tonsa (Dana). The most probable number of DCB associated with starved A. tonsa was 9.2x10(2) cells copepod(-1). The abundance of DCB recovered from the copepod body increased to 1.6-2.8x10(4) after the copepod fed on DMSP-containing alga. DCB abundance associated with fecal pellets averaged 1.2x10(4) cells pellet(-1). In enrichment cultures, the DCB grew with a doubling time of 1.1-2.9 days, and consumed DMSP at a rate of 4.5-7.5 fmol cell(-1) day(-1). The apparent DMSP-to-DMS conversion efficiency was 25-41% for DCB from copepod body, and 99% for DCB from fecal pellets. Our study demonstrated that copepods and their fecal pellets may harbour dense populations of DCB, and that the copepod-bacteria coupling represents a novel mechanism for DMSP consumption in the water column.
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Affiliation(s)
- K W. Tang
- Department of Marine Sciences, University of Connecticut, 1084 Shennecossett Road, 06340, Groton, CT, USA
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41
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Fuse H, Takimura O, Murakami K, Yamaoka Y, Omori T. Utilization of dimethyl sulfide as a sulfur source with the aid of light by Marinobacterium sp. strain DMS-S1. Appl Environ Microbiol 2000; 66:5527-32. [PMID: 11097944 PMCID: PMC92498 DOI: 10.1128/aem.66.12.5527-5532.2000] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Strain DMS-S1 isolated from seawater was able to utilize dimethyl sulfide (DMS) as a sulfur source only in the presence of light in a sulfur-lacking medium. Phylogenetic analysis based on 16S ribosomal DNA genes indicated that the strain was closely related to Marinobacterium georgiense. The strain produced dimethyl sulfoxide (DMSO), which was a main metabolite, and small amounts of formate and formaldehyde when grown on DMS as the sole sulfur source. The cells of the strain grown with succinate as a carbon source were able to use methyl mercaptan or methanesulfonate besides DMS but not DMSO or dimethyl sulfone as a sole sulfur source. DMS was transformed to DMSO primarily at wavelengths between 380 and 480 nm by heat-stable photosensitizers released by the strain. DMS was also degraded to formaldehyde in the presence of light by unidentified heat-stable factors released by the strain, and it appeared that strain DMS-S1 used the degradation products, which should be sulfite, sulfate, or methanesulfonate, as sulfur sources.
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Affiliation(s)
- H Fuse
- Chugoku National Industrial Research Institute, 2-2-2 Hirosuehiro, Kure, Hiroshima 737-0197, Japan.
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42
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Jonkers HM. Microbial production and consumption of dimethyl sulfide (DMS) in a sea grass (Zostera noltii)-dominated marine intertidal sediment ecosystem (Bassin d'Arcachon, France). FEMS Microbiol Ecol 2000; 31:163-172. [PMID: 10640669 DOI: 10.1111/j.1574-6941.2000.tb00681.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
The relation between net dimethyl sulfide (DMS) production and changes in near surface (0-5 mm) oxygen concentrations in a sea grass (Zostera noltii Hornem)-covered intertidal sediment ecosystem was examined during a diel cycle. Sediment covered with Zostera was found to be more oxygenated than uncovered sediment during the period of photosynthesis. This phenomenon was probably caused by radial oxygen loss of the Zostera root-rhizome system. The population sizes of the three functional groups of microbes mainly responsible for the concentration of DMS, the dimethylsulfoniopropionate (DMSP)-demethylating, DMSP-cleaving and DMS-oxidizing bacteria, were quantified by most probable number (MPN) methodologies. Sediments with Zostera supported substantially higher populations of both aerobic (149x10(6) cm(-3) DMSP-utilizing and 0.4x10(6) cm(-3) DMS-oxidizing) and anaerobic (43x10(6) cm(-3) DMSP-utilizing and 0.4x10(6) cm(-3) DMS-oxidizing) microorganisms than sediments without Zostera (DMSP-utilizing aerobes and anaerobes both 2x10(6) cm(-3) and DMS-oxidizing aerobes and anaerobes both 0.2x10(6) cm(-3)). Experiments conducted with sediment cores and sediment slurries suggested that the net production of DMS in these sediments was significantly lower during oxic periods than during anoxic periods. Intact sediment cores with and without Zostera produced DMS when incubated under anoxic/dark conditions (97.0 and 53.6 nmol DMS m(-2) h(-1), respectively), while oxic/light-incubated cores did not produce detectable amounts of DMS. In addition, kinetic parameter values (V(max) and K(m)) for DMSP degradation in cell suspensions of isolated DMSP-demethylating and DMSP-cleaving bacteria were measured and compared to documented values for other strains. Both V(max) and K(m) values for DMSP-demethylating organisms were found to be relatively low (14.4-20.1 nmol DMSP mg protein(-1) min(-1) and 4.1-15.5 µM, respectively) while these parameter values varied widely in the group of the DMSP-cleaving organisms (6.7-1000 nmol DMSP mg protein(-1) min(-1) and 2-2000 µM, respectively). It was hypothesized that a diel rhythm in DMS emission occurred, with a relatively low net production during the day and a high net production during the night. Environmental changes which result in increased anoxic conditions in coastal sediments, such as an increase in eutrophication, may therefore result in increased atmospheric DMS emission rates.
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Affiliation(s)
- HM Jonkers
- Laboratory of Microbial Ecology, Centre for Ecological and Evolutionary Studies (CEES), University of Groningen, Kerklaan 30, NL-9751 NN, Haren, The Netherlands
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43
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Lomans BP, Maas R, Luderer R, Op den Camp HJ, Pol A, van der Drift C, Vogels GD. Isolation and characterization of Methanomethylovorans hollandica gen. nov., sp. nov., isolated from freshwater sediment, a methylotrophic methanogen able to grow on dimethyl sulfide and methanethiol. Appl Environ Microbiol 1999; 65:3641-50. [PMID: 10427061 PMCID: PMC91546 DOI: 10.1128/aem.65.8.3641-3650.1999] [Citation(s) in RCA: 116] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
A newly isolated methanogen, strain DMS1(T), is the first obligately anaerobic archaeon which was directly enriched and isolated from a freshwater sediment in defined minimal medium containing dimethyl sulfide (DMS) as the sole carbon and energy source. The use of a chemostat with a continuous DMS-containing gas stream as a method of enrichment, followed by cultivation in deep agar tubes, resulted in a pure culture. Since the only substrates utilized by strain DMS1(T) are methanol, methylamines, methanethiol (MT), and DMS, this organism is considered an obligately methylotrophic methanogen like most other DMS-degrading methanogens. Strain DMS1(T) differs from all other DMS-degrading methanogens, since it was isolated from a freshwater pond and requires NaCl concentrations (0 to 0.04 M) typical of the NaCl concentrations required by freshwater microorganisms for growth. DMS was degraded effectively only in a chemostat culture in the presence of low hydrogen sulfide and MT concentrations. Addition of MT or sulfide to the chemostat significantly decreased degradation of DMS. Transient accumulation of DMS in MT-amended cultures indicated that transfer of the first methyl group during DMS degradation is a reversible process. On the basis of its low level of homology with the most closely related methanogen, Methanococcoides burtonii (94.5%), its position on the phylogenetic tree, its morphology (which is different from that of members of the genera Methanolobus, Methanococcoides, and Methanohalophilus), and its salt tolerance and optimum (which are characteristic of freshwater bacteria), we propose that strain DMS1(T) is a representative of a novel genus. This isolate was named Methanomethylovorans hollandica. Analysis of DMS-amended sediment slurries with a fluorescence microscope revealed the presence of methanogens which were morphologically identical to M. hollandica, as described in this study. Considering its physiological properties, M. hollandica DMS1(T) is probably responsible for degradation of MT and DMS in freshwater sediments in situ. Due to the reversibility of the DMS conversion, methanogens like strain DMS1(T) can also be involved in the formation of DMS through methylation of MT. This phenomenon, which previously has been shown to occur in sediment slurries of freshwater origin, might affect the steady-state concentrations and, consequently, the total flux of DMS and MT in these systems.
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Affiliation(s)
- B P Lomans
- Department of Microbiology and Evolutionary Biology, Faculty of Science, University of Nijmegen, NL-6525 ED Nijmegen, The Netherlands
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Lomans BP, Op den Camp HJ, Pol A, van der Drift C, Vogels GD. Role of methanogens and other bacteria in degradation of dimethyl sulfide and methanethiol in anoxic freshwater sediments. Appl Environ Microbiol 1999; 65:2116-21. [PMID: 10224009 PMCID: PMC91306 DOI: 10.1128/aem.65.5.2116-2121.1999] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The roles of several trophic groups of organisms (methanogens and sulfate- and nitrate-reducing bacteria) in the microbial degradation of methanethiol (MT) and dimethyl sulfide (DMS) were studied in freshwater sediments. The incubation of DMS- and MT-amended slurries revealed that methanogens are the dominant DMS and MT utilizers in sulfate-poor freshwater systems. In sediment slurries, which were depleted of sulfate, 75 micromol of DMS was stoichiometrically converted into 112 micromol of methane. The addition of methanol or MT to DMS-degrading slurries at concentrations similar to that of DMS reduced DMS degradation rates. This indicates that the methanogens in freshwater sediments, which degrade DMS, are also consumers of methanol and MT. To verify whether a competition between sulfate-reducing and methanogenic bacteria for DMS or MT takes place in sulfate-rich freshwater systems, the effects of sulfate and inhibitors, like bromoethanesulfonic acid, molybdate, and tungstate, on the degradation of MT and DMS were studied. The results for these sulfate-rich and sulfate-amended slurry incubations clearly demonstrated that besides methanogens, sulfate-reducing bacteria take part in MT and DMS degradation in freshwater sediments, provided that sulfate is available. The possible involvement of an interspecies hydrogen transfer in these processes is discussed. In general, our study provides evidence for methanogenesis as a major sink for MT and DMS in freshwater sediments.
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Affiliation(s)
- B P Lomans
- Department of Microbiology and Evolutionary Biology, Faculty of Science, University of Nijmegen, NL-6525 ED Nijmegen, The Netherlands.
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Lomans BP, den Camp HJ, Pol A, Vogels GD. Anaerobic versus aerobic degradation of dimethyl sulfide and methanethiol in anoxic freshwater sediments. Appl Environ Microbiol 1999; 65:438-43. [PMID: 9925565 PMCID: PMC91044 DOI: 10.1128/aem.65.2.438-443.1999] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Degradation of dimethyl sulfide and methanethiol in slurries prepared from sediments of minerotrophic peatland ditches were studied under various conditions. Maximal aerobic dimethyl sulfide-degrading capacities (4.95 nmol per ml of sediment slurry. h-1), measured in bottles shaken under an air atmosphere, were 10-fold higher than the maximal anaerobic degrading capacities determined from bottles shaken under N2 or H2 atmosphere (0.37 and 0. 32 nmol per ml of sediment slurry. h-1, respectively). Incubations under experimental conditions which mimic the in situ conditions (i. e., not shaken and with an air headspace), however, revealed that aerobic degradation of dimethyl sulfide and methanethiol in freshwater sediments is low due to oxygen limitation. Inhibition studies with bromoethanesulfonic acid and sodium tungstate demonstrated that the degradation of dimethyl sulfide and methanethiol in these incubations originated mainly from methanogenic activity. Prolonged incubation under a H2 atmosphere resulted in lower dimethyl sulfide degradation rates. Kinetic analysis of the data resulted in apparent Km values (6 to 8 microM) for aerobic dimethyl sulfide degradation which are comparable to those reported for Thiobacillus spp., Hyphomicrobium spp., and other methylotrophs. Apparent Km values determined for anaerobic degradation of dimethyl sulfide (3 to 8 microM) were of the same order of magnitude. The low apparent Km values obtained explain the low dimethyl sulfide and methanethiol concentrations in freshwater sediments that we reported previously. Our observations point to methanogenesis as the major mechanism of dimethyl sulfide and methanethiol consumption in freshwater sediments.
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Affiliation(s)
- B P Lomans
- Department of Microbiology and Evolutionary Biology, Faculty of Science, University of Nijmegen, NL-6525 ED Nijmegen, The Netherlands.
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Bacic MK, Newell SY, Yoch DC. Release of Dimethylsulfide from Dimethylsulfoniopropionate by Plant-Associated Salt Marsh Fungi. Appl Environ Microbiol 1998; 64:1484-9. [PMID: 16349548 PMCID: PMC106174 DOI: 10.1128/aem.64.4.1484-1489.1998] [Citation(s) in RCA: 21] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
ABSTRACT
The range of types of microbes with dimethylsulfoniopropionate (DMSP) lyase capability (enzymatic release of dimethylsulfide [DMS] from DMSP) has recently been expanded from bacteria and eukaryotic algae to include fungi (a species of the genus
Fusarium
[M. K. Bacic and D. C. Yoch, Appl. Environ. Microbiol. 64:106–111, 1998]). Fungi (especially ascomycetes) are the predominant decomposers of shoots of smooth cordgrass, the principal grass of Atlantic salt marshes of the United States. Since the high rates of release of DMS from smooth cordgrass marshes have a temporal peak that coincides with peak shoot death, we hypothesized that cordgrass fungi were involved in this DMS release. We tested seven species of the known smooth cordgrass ascomycetes and discovered that six of them exhibited DMSP lyase activity. We also tested two species of ascomycetes from other DMSP-containing plants, and both were DMSP lyase competent. For comparison, we tested 11 species of ascomycetes and mitosporic fungi from halophytes that do not contain DMSP; of these 11, only 3 were positive for DMSP lyase. A third group tested, marine oomycotes (four species of the genera
Halophytophthora
and
Pythium
, mostly from mangroves), showed no DMSP lyase activity. Two of the strains of fungi found to be positive for DMSP lyase also exhibited uptake of DMS, an apparently rare combination of capabilities. In conclusion, a strong correlation exists between a fungal decomposer’s ability to catabolize DMSP via the DMSP lyase pathway and the host plant’s production of DMSP as a secondary product.
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Affiliation(s)
- M K Bacic
- Department of Biological Sciences, University of South Carolina, Columbia, South Carolina 29208, and Marine Institute, University of Georgia, Sapelo Island, Georgia 31327
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Horinouchi M, Kasuga K, Nojiri H, Yamane H, Omori T. Cloning and characterization of genes encoding an enzyme which oxidizes dimethyl sulfide in Acinetobacter sp. strain 20B. FEMS Microbiol Lett 1997; 155:99-105. [PMID: 9345770 DOI: 10.1111/j.1574-6968.1997.tb12692.x] [Citation(s) in RCA: 46] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
Acinetobacter sp. strain 20B was isolated based on the ability to utilize dimethyl sulfide as the sole sulfur source. Since strain 20B oxidized indole as well as dimethyl sulfide, indigo production by recombinant Escherichia coli clones carrying Acinetobacter DNA was used as a selection for cloning genes encoding dimethyl sulfide oxidation genes. The gene encoding an indole-oxidizing enzyme was also found to oxidize dimethyl sulfide. The dimethyl sulfide-oxidizing enzyme genes consisted of six open reading flames designated dsoABCDEF. The deduced amino acid sequences of dsoABCDEF were homologous with those of the multicomponent phenol hydroxylases. DsoABCDEF oxidized dimethyl sulfide to dimethyl sulfoxide, and dimethyl sulfoxide to dimethyl sulfone.
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Affiliation(s)
- M Horinouchi
- Biotechnology Research Center, University of Tokyo, Japan
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Wani AH, Branion RM, Lau AK. Biofiltration: A promising and cost‐effective control technology for Odors, VOCs and air toxics. ACTA ACUST UNITED AC 1997. [DOI: 10.1080/10934529709376664] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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49
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Visscher PT, Taylor BF, Kiene RP. Microbial consumption of dimethyl sulfide and methanethiol in coastal marine sediments. FEMS Microbiol Ecol 1995. [DOI: 10.1111/j.1574-6941.1995.tb00172.x] [Citation(s) in RCA: 20] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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50
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Visscher PT, Kiene RP, Taylor BF. Demethylation and cleavage of dimethylsulfoniopropionate in marine intertidal sediments. FEMS Microbiol Ecol 1994. [DOI: 10.1111/j.1574-6941.1994.tb00104.x] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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