scholarly journals Trace methane oxidation studied in several Euryarchaeota under diverse conditions

Archaea ◽  
2005 ◽  
Vol 1 (5) ◽  
pp. 303-309 ◽  
Author(s):  
James J. Moran ◽  
Christopher H. House ◽  
Katherine H. Freeman ◽  
James G. Ferry
Keyword(s):  
Methane Oxidation ◽  
Methanosarcina Barkeri ◽  
Electron Acceptors ◽  
Anaerobic Oxidation Of Methane ◽  
Methanosarcina Acetivorans ◽  
Sulfate Reducing ◽  
Oxidation Of Methane ◽  
Pure Cultures ◽  
Reverse Methanogenesis ◽  
Electron Carriers

We used13C-labeled methane to document the extent of trace methane oxidation byArchaeoglobus fulgidus,Archaeoglobus lithotrophicus,Archaeoglobus profundus,Methanobacterium thermoautotrophicum,Methanosarcina barkeriandMethanosarcina acetivorans. The results indicate trace methane oxidation during growth varied among different species and among methanogen cultures grown on different substrates. The extent of trace methane oxidation byMb. thermoautotrophicum(0.05 ± 0.04%, ± 2 standard deviations of the methane produced during growth) was less than that byM. barkeri(0.15 ± 0.04%), grown under similar conditions with H2and CO2.Methanosarcina acetivoransoxidized more methane during growth on trimethylamine (0.36 ± 0.05%) than during growth on methanol (0.07 ± 0.03%). This may indicate that, inM. acetivorans, either a methyltransferase related to growth on trimethylamine plays a role in methane oxidation, or that methanol is an intermediate of methane oxidation. Addition of possible electron acceptors (O2, NO3–, SO22–, SO32–) or H2to the headspace did not substantially enhance or diminish methane oxidation inM. acetivoranscultures.Separate growth experiments with FAD and NAD+showed that inclusion of these electron carriers also did not enhance methane oxidation. Our results suggest trace methane oxidized during methanogenesis cannot be coupled to the reduction of these electron acceptors in pure cultures, and that the mechanism by which methane is oxidized in methanogens is independent of H2concentration. In contrast to the methanogens, species of the sulfate-reducing genusArchaeoglobusdid not significantly oxidize methane during growth (oxidizing 0.003 ± 0.01% of the methane provided toA. fulgidus, 0.002 ± 0.009% toA. lithotrophicusand 0.003 ± 0.02% toA. profundus). Lack of observable methane oxidation in the threeArchaeoglobusspecies examined may indicate that methyl-coenzyme M reductase, which is not present in this genus, is required for the anaerobic oxidation of methane, consistent with the “reverse methanogenesis” hypothesis.

scholarly journals Reverse Methanogenesis and Respiration in Methanotrophic Archaea

Archaea ◽  
2017 ◽  
Vol 2017 ◽  
pp. 1-22 ◽  
Author(s):  
Peer H. A. Timmers ◽  
Cornelia U. Welte ◽  
Jasper J. Koehorst ◽  
Caroline M. Plugge ◽  
Mike S. M. Jetten ◽  
...  
Keyword(s):  
Methane Oxidation ◽  
Molecular Basis ◽  
Electron Acceptors ◽  
Genome Comparison ◽  
Future Research ◽  
Anaerobic Oxidation Of Methane ◽  
Oxidation Of Methane ◽  
Reverse Methanogenesis ◽  
Methyl Coenzyme M Reductase ◽  
Shed Light

Anaerobic oxidation of methane (AOM) is catalyzed by anaerobic methane-oxidizing archaea (ANME) via a reverse and modified methanogenesis pathway. Methanogens can also reverse the methanogenesis pathway to oxidize methane, but only during net methane production (i.e., “trace methane oxidation”). In turn, ANME can produce methane, but only during net methane oxidation (i.e., enzymatic back flux). Net AOM is exergonic when coupled to an external electron acceptor such as sulfate (ANME-1, ANME-2abc, and ANME-3), nitrate (ANME-2d), or metal (oxides). In this review, the reversibility of the methanogenesis pathway and essential differences between ANME and methanogens are described by combining published information with domain based (meta)genome comparison of archaeal methanotrophs and selected archaea. These differences include abundances and special structure of methyl coenzyme M reductase and of multiheme cytochromes and the presence of menaquinones or methanophenazines. ANME-2a and ANME-2d can use electron acceptors other than sulfate or nitrate for AOM, respectively. Environmental studies suggest that ANME-2d are also involved in sulfate-dependent AOM. ANME-1 seem to use a different mechanism for disposal of electrons and possibly are less versatile in electron acceptors use than ANME-2. Future research will shed light on the molecular basis of reversal of the methanogenic pathway and electron transfer in different ANME types.

scholarly journals Anaerobic Oxidation of Methane in Sediments of Lake Constance, an Oligotrophic Freshwater Lake

2011 ◽  
Vol 77 (13) ◽  
pp. 4429-4436 ◽  
Author(s):  
Jörg S. Deutzmann ◽  
Bernhard Schink
Keyword(s):  
Methane Oxidation ◽  
Electron Acceptors ◽  
Molecular Techniques ◽  
Freshwater Lake ◽  
Lake Constance ◽  
Anaerobic Oxidation Of Methane ◽  
Anaerobic Oxidation ◽  
Terminal Electron Acceptor ◽  
Oxidation Of Methane ◽  
Freshwater Habitats

ABSTRACTAnaerobic oxidation of methane (AOM) with sulfate as terminal electron acceptor has been reported for various environments, including freshwater habitats, and also, nitrate and nitrite were recently shown to act as electron acceptors for methane oxidation in eutrophic freshwater habitats. Radiotracer experiments with sediment material of Lake Constance, an oligotrophic freshwater lake, were performed to follow14CO2formation from14CH4in sediment incubations in the presence of different electron acceptors, namely, nitrate, nitrite, sulfate, or oxygen. Whereas14CO2formation without and with sulfate addition was negligible, addition of nitrate increased14CO2formation significantly, suggesting that AOM could be coupled to denitrification. Nonetheless, denitrification-dependent AOM rates remained at least 1 order of magnitude lower than rates of aerobic methane oxidation. Using molecular techniques, putative denitrifying methanotrophs belonging to the NC10 phylum were detected on the basis of thepmoAand 16S rRNA gene sequences. These findings show that sulfate-dependent AOM was insignificant in Lake constant sediments. However, AOM can also be coupled to denitrification in this oligotrophic freshwater habitat, providing first indications that this might be a widespread process that plays an important role in mitigating methane emissions.

scholarly journals Evidence for an expanded repertoire of electron acceptors for the anaerobic oxidation of methane in authigenic carbonates in the Atlantic and Pacific Ocean

2020 ◽  
Author(s):  
Sabrina Beckmann ◽  
Ibrahim F. Farag ◽  
Rui Zhao ◽  
Glenn D Christman ◽  
Nancy G Prouty ◽  
...  
Keyword(s):  
Electron Acceptors ◽  
Nitrogen Compounds ◽  
Anaerobic Oxidation Of Methane ◽  
Cold Seeps ◽  
Authigenic Carbonates ◽  
Sulfate Reducing ◽  
Oxidation Of Methane ◽  
The Pacific ◽  
Pacific Margin ◽  
Sulfur And Nitrogen Compounds

AbstractAuthigenic carbonates represent a significant microbial sink for methane, yet little is known about the microbiome responsible for the methane removal. We identify carbonate microbiomes distributed over 21 locations hosted by 7 different cold seeps in the Pacific and Atlantic Oceans by carrying out a gene-based survey using 16S rRNA- and mcrA gene sequencing coupled with metagenomic analyses. These sites were dominated by bacteria affiliated to the Firmicutes, Alpha- and Gammaproteobacteria. ANME-1 and −2 clades were abundant in the carbonates yet their typical syntrophic partners, sulfate reducing bacteria, were not significantly present. Our analysis indicated that methane oxidizers affiliated to the ANME-1 and −2 as well as to the Candidatus Methanoperedens clades, are capable of performing complete methane- and potentially short-chain alkane oxidations independently using oxidized sulfur and nitrogen compounds as terminal electron acceptors. Gammaproteobacteria are hypothetically capable of utilizing oxidized nitrogen compounds in potential syntrophy with methane oxidizing archaea. Carbonate structures represent a window for a more diverse utilization of electron acceptors for anaerobic methane oxidation along the Atlantic and Pacific Margin.

scholarly journals Modification of methane oxidation pathways during long-term incubations of methanic lake sediments

2021 ◽  
Author(s):  
Hanni Vigderovich ◽  
Werner Eckert ◽  
Michal Elul ◽  
Maxim Rubin-Blum ◽  
Marcus Elvert ◽  
...  
Keyword(s):  
Lake Sediments ◽  
Carbon Isotope ◽  
Iron Oxides ◽  
Methane Oxidation ◽  
Electron Acceptors ◽  
Anaerobic Oxidation Of Methane ◽  
Methanotrophic Bacteria ◽  
Oxidation Of Methane ◽  
Isotope Measurements

Abstract. Anaerobic oxidation of methane (AOM) is one of the major processes limiting the release of the greenhouse gas methane from natural environments. In Lake Kinneret sediments, iron-coupled AOM (Fe-AOM) was suggested to play a substantial role (10–15 % relative to methanogenesis) in the methanic zone (> 20 cm sediment depth), based on geochemical profiles and experiments on fresh sediments. Apparently, the oxidation of methane is mediated by a combination of mcr gene bearing archaea and aerobic bacterial methanotrophs. Here we aimed to investigate the survival of this complex microbial interplay under controlled conditions. We followed the AOM process during long-term (~18 months) anaerobic slurry experiments of these methanic sediments with two stages of incubations and additions of 13C-labeled methane, multiple electron acceptors and inhibitors. After these incubation stages carbon isotope measurements in the dissolved inorganic pool still showed considerable AOM (3–8 % relative to methanogenesis). Specific lipid carbon isotope measurements and metagenomic analyses indicate that after the prolonged incubation aerobic methanotrophic bacteria were no longer involved in the oxidation process, whereas mcr gene bearing archaea were most likely responsible for oxidizing the methane. Humic substances and iron oxides are likely electron acceptors to support this oxidation, whereas sulfate, manganese, nitrate, and nitrite did not support the AOM in these methanic sediments. Our results suggest in the natural lake sediments methanotrophic bacteria are responsible for part of the methane oxidation by the reduction of combined micro levels of oxygen and iron oxides in a cryptic cycle, while the rest of the methane is converted by reverse methanogenesis. After long-term incubation, the latter prevails without bacterial methanotropic activity and with a different iron reduction pathway.

A new intra-aerobic metabolism in the nitrite-dependent anaerobic methane-oxidizing bacterium Candidatus ‘Methylomirabilis oxyfera’

2011 ◽  
Vol 39 (1) ◽  
pp. 243-248 ◽  
Author(s):  
Ming L. Wu ◽  
Katharina F. Ettwig ◽  
Mike S.M. Jetten ◽  
Marc Strous ◽  
Jan T. Keltjens ◽  
...  
Keyword(s):  
Nitric Oxide ◽  
Methane Oxidation ◽  
Current Knowledge ◽  
Methanogenic Archaea ◽  
Anaerobic Methane Oxidation ◽  
Oxidation Pathway ◽  
Sulfate Reducing ◽  
Oxidation Of Methane ◽  
Aerobic Methanotrophs ◽  
Reverse Methanogenesis

Biological methane oxidation proceeds either through aerobic or anaerobic pathways. The newly discovered bacterium Candidatus ‘Methylomirabilis oxyfera’ challenges this dichotomy. This bacterium performs anaerobic methane oxidation coupled to denitrification, but does so in a peculiar way. Instead of scavenging oxygen from the environment, like the aerobic methanotrophs, or driving methane oxidation by reverse methanogenesis, like the methanogenic archaea in sulfate-reducing systems, it produces its own supply of oxygen by metabolizing nitrite via nitric oxide into oxygen and dinitrogen gas. The intracellularly produced oxygen is then used for the oxidation of methane by the classical aerobic methane oxidation pathway involving methane mono-oxygenase. The present mini-review summarizes the current knowledge about this process and the micro-organism responsible for it.

Paddy soil fertilization, organic and inorganic alternative electron acceptors shape microbial community network and determine competitive pathways of Anaerobic Oxidation of Methane

2020 ◽  
Author(s):  
Lichao Fan
Keyword(s):  
Network Analysis ◽  
Humic Acids ◽  
Paddy Soil ◽  
Electron Acceptors ◽  
Pig Manure ◽  
Anaerobic Oxidation Of Methane ◽  
Anaerobic Incubation ◽  
Sulfate Reducing ◽  
Oxidation Of Methane ◽  
Reducing Bacteria

<p>Anaerobic oxidation of methane (AOM) is a globally important CH<sub>4</sub> sink that is offsetting potential CH<sub>4</sub> emission into the atmosphere. The AOM depends on the availability of the alternative to oxygen electron acceptors (AEAs) which can be of inorganic (e.g. NO<sub>3</sub><sup>-</sup>, Fe<sup>3+</sup>, SO<sub>4</sub><sup>2-</sup>), and organic (e.g. humic acids) origin. Flooded paddy soils are among the ecosystems with pronounced AOM. Due to a variety of fertilization practices, including combinations of mineral (NPK) and organic (pig manure, biochar) fertilizers, there is a range of AEAs available in paddy soil under anaerobic conditions. However, it remains unclear whether (i) AOM has a preferential pathway in paddy soil, and (ii) how do AEAs and fertilization type affect anaerobic microbial interactions. Therefore, we tested the effects of key AEAs – NO<sub>3</sub><sup>-</sup>, Fe<sup>3+</sup>, SO<sub>4</sub><sup>2-</sup>, and humic acids – on bacterial community structure (by 16s rRNA gene sequencing) in paddy soil with ongoing AOM experiment under mineral and organic fertilization. We hypothesized that incorporation of labeled <sup>13</sup>C-CH<sub>4</sub> during AOM into CO<sub>2</sub> and phospholipid fatty acid biomarkers (PLFA) along with co-occurrence bacterial network analysis will reveal the preferential AOM pathway as related to a type of fertilization.</p><p>Bacterial alpha-diversity was significantly increased after 84-day anaerobic incubation. Pig manure significantly increased the microbial biomass as compared with NPK and Biochar, but the AEAs amendment did not affect the biomass. Anaerobic incubation, fertilization treatments specific biochar and NPK, and AEAs amendments specific SO<sub>4</sub><sup>2-</sup> and humic acids were factors contributing to microbiome variation. Network analysis indicated that microbial communities involved in CH<sub>4</sub> cycling (i.e. NC10, sulfate-reducing bacteria, Geobacter, syntrophic bacteria with methanogens and ANME-2) had non-random co-occurrence patterns and was modularized. There were 16 <sup>13</sup>C-enriched PLFA biomarkers confirming the incorporation of C-CH<sub>4</sub> into bacteria. AOM and <sup>13</sup>C-PLFA were significantly higher under Pig manure relative to other fertilizations. AOM was more intensive under NO<sub>3</sub><sup>-</sup> than Fe<sup>3+</sup> and humic acids, but was close to zero under SO<sub>4</sub><sup>2-</sup> amendment. However, the relative abundance of NC10 phylum which includes organisms performing AOM, and sulfate-reducing bacteria were higher under SO<sub>4</sub><sup>2-</sup>. The relative abundance of <em>Geobacter</em> was highest under biochar and NPK fertilization with SO<sub>4</sub><sup>2-</sup> and humic acids amendments. Taken together, NO<sub>3</sub><sup>-</sup>-driven AOM is the most potent AOM pathway in paddy soil, which however co-exists with the AOM pathways via reduction of NO<sub>2</sub><sup>- </sup>by NC10 bacteria and reduction of Fe<sup>3+</sup> and humic acids by consortia of ANME with <em>Geobacter</em>. Consequently, the co-occurrence network and evidence from <sup>13</sup>C incorporation into CO<sub>2</sub> and PLFAs indicate the multiple competitive pathways of AOM in paddy soil.</p>

scholarly journals Manganese/iron-supported sulfate-dependent anaerobic oxidation of methane by archaea in lake sediments

2019 ◽  
Author(s):  
Guangyi Su ◽  
Jakob Zopfi ◽  
Haoyi Yao ◽  
Lea Steinle ◽  
Helge Niemann ◽  
...  
Keyword(s):  
Lake Sediments ◽  
16S Rrna Gene Sequencing ◽  
Electron Acceptors ◽  
Rrna Gene ◽  
Anaerobic Oxidation Of Methane ◽  
Anaerobic Oxidation ◽  
Sequencing Data ◽  
Oxidation Of Methane ◽  
Freshwater Habitats ◽  
Rrna Gene Sequencing

AbstractAnaerobic oxidation of methane (AOM) by methanotrophic archaea is an important sink of this greenhouse gas in marine sediments. However, evidence for AOM in freshwater habitats is rare, and little is known about the pathways, electron acceptors and microbes involved. Here, we show that AOM occurs in anoxic sediments of a lake in southern Switzerland (Lake Cadagno). Combined AOM-rate and 16S rRNA gene-sequencing data suggest thatCandidatusMethanoperedens archaea are responsible for the observed methane oxidation. Members of the Methanoperedenaceae family were previously reported to conduct nitrate- or iron/manganese-dependent AOM. However, we demonstrate for the first time that the methanotrophic archaea do not necessarily rely upon these oxidants as terminal electron acceptors directly, but mainly perform canonical sulfate-dependent AOM, which under sulfate-starved conditions can be supported by metal (Mn, Fe) oxides through oxidation of reduced sulfur species to sulfate. The correspondence of high abundances of Desulfobulbaceae andCandidatusMethanoperedens at the same sediment depth confirm the interdependence of anaerobic methane-oxidizing archaea and sulfate-reducing bacteria. The relatively high abundance and widespread distribution ofCandidatusMethanoperedens in lake sediments highlight their potentially important role in mitigating methane emissions from terrestrial freshwater environments to the atmosphere, analogous to ANME-1, -2 and -3 in marine settings.

scholarly journals Subgroup Characteristics of Marine Methane-Oxidizing ANME-2 Archaea and Their Syntrophic Partners as Revealed by Integrated Multimodal Analytical Microscopy

2018 ◽  
Vol 84 (11) ◽  
Author(s):  
Shawn E. McGlynn ◽  
Grayson L. Chadwick ◽  
Ariel O'Neill ◽  
Mason Mackey ◽  
Andrea Thor ◽  
...  
Keyword(s):  
Electron Microscopy ◽  
Methane Oxidation ◽  
Three Dimensional ◽  
Fluorescence Labeling ◽  
Anaerobic Oxidation Of Methane ◽  
Methane Seep ◽  
Bacterial Populations ◽  
Symbiotic Associations ◽  
Iron Mineral ◽  
Oxidation Of Methane

ABSTRACTPhylogenetically diverse environmental ANME archaea and sulfate-reducing bacteria cooperatively catalyze the anaerobic oxidation of methane oxidation (AOM) in multicelled consortia within methane seep environments. To better understand these cells and their symbiotic associations, we applied a suite of electron microscopy approaches, including correlative fluorescencein situhybridization-electron microscopy (FISH-EM), transmission electron microscopy (TEM), and serial block face scanning electron microscopy (SBEM) three-dimensional (3D) reconstructions. FISH-EM of methane seep-derived consortia revealed phylogenetic variability in terms of cell morphology, ultrastructure, and storage granules. Representatives of the ANME-2b clade, but not other ANME-2 groups, contained polyphosphate-like granules, while some bacteria associated with ANME-2a/2c contained two distinct phases of iron mineral chains resembling magnetosomes. 3D segmentation of two ANME-2 consortium types revealed cellular volumes of ANME and their symbiotic partners that were larger than previous estimates based on light microscopy. Polyphosphate-like granule-containing ANME (tentatively termed ANME-2b) were larger than both ANME with no granules and partner bacteria. This cell type was observed with up to 4 granules per cell, and the volume of the cell was larger in proportion to the number of granules inside it, but the percentage of the cell occupied by these granules did not vary with granule number. These results illuminate distinctions between ANME-2 archaeal lineages and partnering bacterial populations that are apparently unified in their ability to perform anaerobic methane oxidation.IMPORTANCEMethane oxidation in anaerobic environments can be accomplished by a number of archaeal groups, some of which live in syntrophic relationships with bacteria in structured consortia. Little is known of the distinguishing characteristics of these groups. Here, we applied imaging approaches to better understand the properties of these cells. We found unexpected morphological, structural, and volume variability of these uncultured groups by correlating fluorescence labeling of cells with electron microscopy observables.

scholarly journals Anaerobic oxidation of methane in grassland soils used for cattle husbandry

2012 ◽  
Vol 9 (10) ◽  
pp. 3891-3899 ◽  
Author(s):  
A. Bannert ◽  
C. Bogen ◽  
J. Esperschütz ◽  
A. Koubová ◽  
F. Buegger ◽  
...  
Keyword(s):  
Methane Oxidation ◽  
Enrichment Culture ◽  
Anaerobic Oxidation Of Methane ◽  
Anaerobic Oxidation ◽  
Incubation Experiment ◽  
Nutrient Source ◽  
Oxidation Activity ◽  
Oxidation Of Methane ◽  
Cattle Husbandry

Abstract. While the importance of anaerobic methane oxidation has been reported for marine ecosystems, the role of this process in soils is still questionable. Grasslands used as pastures for cattle overwintering show an increase in anaerobic soil micro-sites caused by animal treading and excrement deposition. Therefore, anaerobic potential methane oxidation activity of severely impacted soil from a cattle winter pasture was investigated in an incubation experiment under anaerobic conditions using 13C-labelled methane. We were able to detect a high microbial activity utilizing CH4 as nutrient source shown by the respiration of 13CO2. Measurements of possible terminal electron acceptors for anaerobic oxidation of methane were carried out. Soil sulfate concentrations were too low to explain the oxidation of the amount of methane added, but enough nitrate and iron(III) were detected. However, only nitrate was consumed during the experiment. 13C-PLFA analyses clearly showed the utilization of CH4 as nutrient source mainly by organisms harbouring 16:1ω7 PLFAs. These lipids were also found as most 13C-enriched fatty acids by Raghoebarsing et al. (2006) after addition of 13CH4 to an enrichment culture coupling denitrification of nitrate to anaerobic oxidation of methane. This might be an indication for anaerobic oxidation of methane by relatives of "Candidatus Methylomirabilis oxyfera" in the investigated grassland soil under the conditions of the incubation experiment.

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