Influence of electron acceptor availability and microbial community structure on sedimentary methane oxidation in a boreal estuary

Myllykangas, Jukka-Pekka; Rissanen, Antti J.; Hietanen, Susanna; Jilbert, Tom

doi:10.1007/s10533-020-00660-z

Cited by 37 publications

(25 citation statements)

References 74 publications

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“…Below the SMTZ, ferric oxides (ferrihydrite) can accumulate and act as terminal electron acceptors for AOM (Egger et al, 2015). A recent study from another area in the Baltic Sea, Pojo Bay estuary in Finland, also provided evidence for AOM below the SMTZ in Fe‐rich coastal sediments (Myllykangas et al, 2020). The microbial communities from both ecosystems exhibited significant similarities, including dominant taxa such as ANME‐2a/b, Methanomicrobia , Bathyarchaeota , Thermoplasmata , Bacteroidetes , Chloroflexi , Verrucomicrobia , and Proteobacteria (α‐, β‐, γ‐) (Myllykangas et al, 2020; Rasigraf et al, 2020).…”

Section: Introductionmentioning

confidence: 90%

“…A recent study from another area in the Baltic Sea, Pojo Bay estuary in Finland, also provided evidence for AOM below the SMTZ in Fe-rich coastal sediments (Myllykangas et al, 2020). The microbial communities from both ecosystems exhibited significant similarities, including dominant taxa such as Methanomicrobia,Bathyarchaeota,Thermoplasmata,Bacteroidetes,Chloroflexi,Verrucomicrobia, (Myllykangas et al, 2020;Rasigraf et al, 2020). However, a direct link between particular taxa and Fe-AOM activity in Baltic Sea sediments is still lacking.…”

Section: Introductionmentioning

confidence: 99%

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Enrichment of novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria in an oxygen‐limited methane‐ and iron‐fed bioreactor inoculated with Bothnian Sea sediments

Martins

Lenstra

et al. 2021

MicrobiologyOpen

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Microbial methane oxidation is a major biofilter preventing larger emissions of this powerful greenhouse gas from marine coastal areas into the atmosphere. In these zones, various electron acceptors such as sulfate, metal oxides, nitrate, or oxygen can be used. However, the key microbial players and mechanisms of methane oxidation are poorly understood. In this study, we inoculated a bioreactor with methane‐ and iron‐rich sediments from the Bothnian Sea to investigate microbial methane and iron cycling under low oxygen concentrations. Using metagenomics, we investigated shifts in microbial community composition after approximately 2.5 years of bioreactor operation. Marker genes for methane and iron cycling, as well as respiratory and fermentative metabolism, were identified and used to infer putative microbial metabolism. Metagenome‐assembled genomes representing novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria were recovered and revealed a potential for methane oxidation, organic matter degradation, and iron cycling, respectively. This work brings new hypotheses on the identity and metabolic versatility of microorganisms that may be members of such functional guilds in coastal marine sediments and highlights that microorganisms potentially composing the methane biofilter in these sediments may be more diverse than previously appreciated.

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Section: Introductionmentioning

confidence: 90%

Section: Introductionmentioning

confidence: 99%

Enrichment of novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria in an oxygen‐limited methane‐ and iron‐fed bioreactor inoculated with Bothnian Sea sediments

Martins

Lenstra

et al. 2021

MicrobiologyOpen

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“…In the PCR reactions, the V4 region of the bacterial and archaeal 16S rRNA genes were simultaneously targeted using primer pair 515FB (5’-GTGYCAGCMGCCGCGGTAA-3′)/806FB (5’-GGACTACNVGGGTWTCTAAT-3′) (Apprill et al 2015; Parada, Needham and Fuhrman 2016). PCR, library preparation and sequencing (Illumina MiSeq, Illumina, San Diego, CA, USA) was performed as previously described (Myllykangas et al 2020), except that, in PCR reactions, approximately 15 ng of DNA were used.…”

Section: Methodsmentioning

confidence: 99%

Anaerobic oxidation of methane in sediments of a nitrate-rich, oligo-mesotrophic boreal lake

Rissanen

Jilbert

Simojoki

et al. 2021

Preprint

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The importance of nitrate in promoting anaerobic oxidation of methane (AOM) in the sediments of boreal lakes is currently unknown. Here we investigated the extent to which sediment AOM is linked to nitrate reduction in a nitrate-rich, oligo-mesotrophic, boreal lake (Lake Paajarvi, Finland). AOM potential of sediment slurries, collected from three profundal stations of the study lake, was measured at varying nitrate concentrations using 13C-labelling. This was coupled with analysis of vertical profiles of the sediment and porewater geochemistry and the microbial communities (16S rRNA gene and shotgun metagenomic sequencing). Sediment AOM potential was enhanced by nitrate at a shallow station with high contents of labile phytoplankton-derived organic matter (Station 1), but not at the other two stations. AOM was also much higher at Station 1 (2.0-6.8 nmol C cm-3 d-1) than at the other stations (0-0.3 nmol C cm-3 d-1). Accordingly, methanotrophic archaea (Candidatus Methanoperedens sp.) and bacteria (Methylococcales) had the highest relative abundance at Station 1. Furthermore, geochemical profiles indicated that AOM was potentially coupled with reduction of nitrate, iron, or sulfate at all stations. We conclude that AOM linked to nitrate reduction takes place in boreal lake sediments. However, our data cannot resolve whether nitrate affects the process directly, via enhancing nitrate reduction-mediated AOM, or indirectly, via enhancing AOM mediated by reduction of other electron acceptors.

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“…PCR, library preparation and sequencing (Illumina MiSeq, Illumina, San Diego, CA, USA) took place as previously described (Myllykangas et al . 2020 ), except that, in PCR reactions, ~5 ng of DNA were used, and the annealing temperature was 53°C for primer pair 27F/338R. For shotgun metagenomic analysis of the Lovojärvi samples, the library preparation and sequencing (Illumina NovaSeq) were performed as previously described (Buck et al .…”

Section: Methodsmentioning

confidence: 99%

Vertical stratification patterns of methanotrophs and their genetic controllers in water columns of oxygen-stratified boreal lakes

Rissanen

Saarela

Jäntti

et al. 2020

FEMS Microbiology Ecology

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The vertical structuring of methanotrophic communities and its genetic controllers remain understudied in the water columns of oxygen-stratified lakes. Therefore, we used 16S rRNA gene sequencing to study the vertical stratification patterns of methanotrophs in two boreal lakes, Lake Kuivajärvi and Lake Lovojärvi. Furthermore, metagenomic analyses were performed to assess the genomic characteristics of methanotrophs in Lovojärvi and the previously studied Lake Alinen Mustajärvi. The methanotroph communities were vertically structured along the oxygen gradient. Alphaproteobacterial methanotrophs preferred oxic water layers, while Methylococcales methanotrophs, consisting of putative novel genera and species, thrived, especially at and below the oxic-anoxic interface and showed distinct depth variation patterns, which were not completely predictable by their taxonomic classification. Instead, genomic differences among Methylococcales methanotrophs explained their variable vertical depth patterns. Genes in clusters of orthologous groups (COG) categories L (replication, recombination and repair) and S (function unknown) were relatively high in metagenome-assembled genomes representing Methylococcales clearly thriving below the oxic-anoxic interface, suggesting genetic adaptations for increased stress tolerance enabling living in the hypoxic/anoxic conditions. By contrast, genes in COG category N (cell motility) were relatively high in metagenome-assembled genomes of Methylococcales thriving at the oxic-anoxic interface, which suggests genetic adaptations for increased motility at the vertically fluctuating oxic-anoxic interface.

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Influence of electron acceptor availability and microbial community structure on sedimentary methane oxidation in a boreal estuary

Cited by 37 publications

References 74 publications

Enrichment of novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria in an oxygen‐limited methane‐ and iron‐fed bioreactor inoculated with Bothnian Sea sediments

Enrichment of novel Verrucomicrobia, Bacteroidetes, and Krumholzibacteria in an oxygen‐limited methane‐ and iron‐fed bioreactor inoculated with Bothnian Sea sediments

Anaerobic oxidation of methane in sediments of a nitrate-rich, oligo-mesotrophic boreal lake

Vertical stratification patterns of methanotrophs and their genetic controllers in water columns of oxygen-stratified boreal lakes

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