Environmental evidence for net methane production and oxidation in putative ANaerobic MEthanotrophic (ANME) archaea

Lloyd, Karen G.; Alperin, Marc J.; Teske, Andreas

doi:10.1111/j.1462-2920.2011.02526.x

Cited by 152 publications

(198 citation statements)

References 78 publications

(111 reference statements)

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“…This designation reflects phylogenetic affinity, and does not postulate an obligate methanotrophic metabolism, given that the environmental distribution and gene expression patterns of ANME-1 archaea indicate facultative methanogenic potential (Lloyd et al, 2011;Bowles et al, 2011). The ANME-1Guaymas group is distinct from other hydrothermal vent ANME-1 phylotypes, such as those from the Lost City hydrothermal vents (Figure 2).…”

Section: S Rrna Archaeal Diversitymentioning

confidence: 98%

Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments

et al. 2011

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Anaerobic oxidation of methane (AOM) was investigated in hydrothermal sediments of Guaymas Basin based on d 13 C signatures of CH 4 , dissolved inorganic carbon and porewater concentration profiles of CH 4 and sulfate. Cool, warm and hot in-situ temperature regimes (15-20 1C, 30-35 1C and 70-95 1C) were selected from hydrothermal locations in Guaymas Basin to compare AOM geochemistry and 16S ribosomal RNA (rRNA), mcrA and dsrAB genes of the microbial communities. 16S rRNA gene clone libraries from the cool and hot AOM cores yielded similar archaeal types such as Miscellaneous Crenarchaeotal Group, Thermoproteales and anaerobic methane-oxidizing archaea (ANME)-1; some of the ANME-1 archaea formed a separate 16S rRNA lineage that at present seems to be limited to Guaymas Basin. Congruent results were obtained by mcrA gene analysis. The warm AOM core, chemically distinct by lower porewater sulfide concentrations, hosted a different archaeal community dominated by the two deep subsurface archaeal lineages Marine Benthic Group D and Marine Benthic Group B, and by members of the Methanosarcinales including ANME-2 archaea. This distinct composition of the methane-cycling archaeal community in the warm AOM core was confirmed by mcrA gene analysis. Functional genes of sulfate-reducing bacteria and archaea, dsrAB, showed more overlap between all cores, regardless of the core temperature. 16S rRNA gene clone libraries with Euryarchaeota-specific primers detected members of the Archaeoglobus clade in the cool and hot cores. A V6-tag high-throughput sequencing survey generally supported the clone library results while providing high-resolution detail on archaeal and bacterial community structure. These results indicate that AOM and the responsible archaeal communities persist over a wide temperature range.

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Section: S Rrna Archaeal Diversitymentioning

confidence: 98%

Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments

et al. 2011

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“…No clear phylogenetic separation was observed for sequences from the methane oxidation and production zones (Figure 1, red and blue dots, respectively). No seasonality was observed with MCG types, as sequences from the winter core (December 06) were distributed concentrations for White Oak River estuary cores July 08-1 (d) and July 08-2 (e) and for Hydrate Ridge (f); (originally published in Lloyd et al (2011), and in Treude et al, 2003). Dashed horizontal lines are the depth above which there is net anaerobic oxidation of methane (AOM) and below which there is net methane production (MP; Lloyd et al, 2011). throughout the MCG tree along with those from summer cores (July 05-2, July 08-1 and July 08-2).…”

Section: Mcg Depth Distributionmentioning

confidence: 99%

“…Quantitative PCR qPCR for 16S rRNA genes was performed as described previously (Lloyd et al, 2011). Total archaeal 16S rRNA genes were quantified using primers ARCH915F and ARC1059R, or ARCH806F and ARCH915R; total bacterial using BAC340F and BAC515R; and total MCG using MCG528F and MCG732R or primers MCG410F and MCG528R (Supplementary Table S1).…”

Section: Mcg Phylogenetic Analysismentioning

confidence: 99%

“…cDNA clone libraries Total RNA was reverse-transcribed and amplified with general 16S rRNA-targeted archaeal primers, checked for DNA co-extraction, and sequenced as described previously (Lloyd et al, 2011). Pintail (Ashelford et al, 2006) and Chimera Slayer (Haas et al, 2011) were implemented in Mothur v.1.19.4 (Schloss et al, 2009) using the ARB/SILVA Ref106 database, to remove 16S rRNA sequences that were likely chimeric.…”

Section: Slot Blot Hybridizationmentioning

confidence: 99%

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Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments

et al. 2012

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Members of the highly diverse Miscellaneous Crenarchaeotal Group (MCG) are globally distributed in various marine and continental habitats. In this study, we applied a polyphasic approach (rRNA slot blot hybridization, quantitative PCR (qPCR) and catalyzed reporter deposition FISH) using newly developed probes and primers for the in situ detection and quantification of MCG crenarchaeota in diverse types of marine sediments and microbial mats. In general, abundance of MCG (cocci, 0.4 lm) relative to other archaea was highest (12-100%) in anoxic, low-energy environments characterized by deeper sulfate depletion and lower microbial respiration rates (P ¼ 0.06 for slot blot and P ¼ 0.05 for qPCR). When studied in high depth resolution in the White Oak River estuary and Hydrate Ridge methane seeps, changes in MCG abundance relative to total archaea and MCG phylogenetic composition did not correlate with changes in sulfate reduction or methane oxidation with depth. In addition, MCG abundance did not vary significantly (P40.1) between seep sites (with high rates of methanotrophy) and non-seep sites (with low rates of methanotrophy). This suggests that MCG are likely not methanotrophs. MCG crenarchaeota are highly diverse and contain 17 subgroups, with a range of intragroup similarity of 82 to 94%. This high diversity and widespread distribution in subsurface sediments indicates that this group is globally important in sedimentary processes.

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“…The absence of transcripts for coenzyme F 420 -dependent N 5 ,N 10 -methenyltetrahydromethanopterin dehydrogenase, which is lacking in ANME (Hallam et al, 2004), supports the hypothesis that ANMEs, performing AOM, are the key players here. The ANME-1 archaea were assumed to be obligatory methanotrophs, but recent studies provide evidence of co-occurrence of AOM and methanogenesis (Lloyd et al, 2011;Bertram et al, 2013;Wang et al, 2013). ANMEs were shown to assimilate inorganic carbon (Kellermann et al, 2012), but also to be capable of growing on acetate, pyruvate or butyrate using thiosulfate as an electron acceptor (Jagersma et al, 2012).…”

Section: Methanogenesis and Aommentioning

confidence: 99%

Unveiling microbial activities along the halocline of Thetis, a deep-sea hypersaline anoxic basin

et al. 2014

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Deep-sea hypersaline anoxic basins (DHABs) in the Eastern Mediterranean Sea are considered some of the most hostile environments on Earth. Little is known about the biochemical adaptations of microorganisms living in these habitats. This first metatranscriptome analysis of DHAB samples provides significant insights into shifts in metabolic activities of microorganisms as physicochemical conditions change from deep Mediterranean sea water to brine. The analysis of Thetis DHAB interface indicates that sulfate reduction occurs in both the upper (7.0-16.3% salinity) and lower (21.4-27.6%) halocline, but that expression of dissimilatory sulfate reductase is reduced in the more hypersaline lower halocline. High dark-carbon assimilation rates in the upper interface coincided with high abundance of transcripts for ribulose 1,5-bisphosphate carboxylase affiliated to sulfuroxidizing bacteria. In the lower interface, increased expression of genes associated with methane metabolism and osmoregulation is noted. In addition, in this layer, nitrogenase transcripts affiliated to uncultivated putative methanotrophic archaea were detected, implying nitrogen fixation in this anoxic habitat, and providing evidence of linked carbon, nitrogen and sulfur cycles.

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Environmental evidence for net methane production and oxidation in putative ANaerobic MEthanotrophic (ANME) archaea

Cited by 152 publications

References 78 publications

Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments

Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments

Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments

Unveiling microbial activities along the halocline of Thetis, a deep-sea hypersaline anoxic basin

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