Identification of a Metagenome-Assembled Genome of an Uncultured
            <i>Methyloceanibacter</i>
            sp. Strain Acquired from an Activated Sludge System Used for Landfill Leachate Treatment

Yasuda, Shohei; Suenaga, Toshikazu; Orschler, Laura; Agrawal, Shelesh; Lackner, Susanne; Terada, Akihiko

doi:10.1128/mra.00771-20

Cited by 6 publications

(5 citation statements)

References 16 publications

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“…One bacterial MAG matched closely to the marine methylotrophic genus Methyloceanibacter was identified in our study. Other study showed the Methyloceanibacter was also found in the other terrestrial ecosystems (Yasuda et al, 2020), implying that Methyloceanibacter may play key roles in soil CH 4 oxidation of Tibetan alpine grassland. Consistently, the abundance of methanogenic genes (i.e., fmdA) was significantly decreased by warming, whereas methanotrophic genes (i.e., smoA) were significantly increased by warming at this site.…”

Section: Discussionmentioning

confidence: 87%

Microbially enhanced methane uptake under warming enlarges ecosystem carbon sink in a Tibetan alpine grassland

Zhao

Tian

et al. 2022

Global Change Biology

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The alpine grasslands of the Tibetan Plateau store 23.2 Pg soil organic carbon, which becomes susceptible to microbial degradation with climate warming. However, accurate prediction of how the soil carbon stock changes under future climate warming is hampered by our limited understanding of belowground complex microbial communities. Here, we show that 4 years of warming strongly stimulated methane (CH 4 ) uptake by 93.8% and aerobic respiration (CO 2 ) by 11.3% in the soils of alpine grassland ecosystem. Due to no significant effects of warming on net ecosystem CO 2 exchange (NEE), the warming-stimulated CH 4 uptake enlarged the carbon sink capacity of whole ecosystem. Furthermore, precipitation alternation did not alter such warming effects, despite the significant effects of precipitation on NEE and soil CH 4 fluxes were observed. Metagenomic sequencing revealed that warming led to significant shifts in the overall microbial community structure and the abundances of functional genes, which contrasted to no detectable changes after 2 years of warming. Carbohydrate utilization genes were significantly increased by warming, corresponding with significant increases in soil aerobic respiration. Increased methanotrophic genes and decreased methanogenic genes were observed under warming, which significantly (R 2 = .59, p < .001) correlated with warming-enhanced CH 4 uptakes. Furthermore, 212 metagenome-assembled genomes were recovered, including many populations involved in the degradation of various organic matter and a highly abundant methylotrophic population of the Methyloceanibacter genus. Collectively, our results provide compelling evidence that specific microbial functional traits for CH 4 and CO 2 cycling | 6907 QI et al.

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Section: Discussionmentioning

confidence: 87%

Microbially enhanced methane uptake under warming enlarges ecosystem carbon sink in a Tibetan alpine grassland

Zhao

Tian

et al. 2022

Global Change Biology

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“…We also found members of the bacterial phyla Atribacterota (g__CG2-30-33-13) and Aerophobota (g__AE-B3A), which are commonly found in methane-rich sediments across various environments such as temperate soils, deep marine sediments, and permafrost 39,40 . We detected several methanotrophic bacteria with high detection, including high-affinity methanotrophs like Methyloceanibacter [41][42][43] and genera from Methylomonadaceae such as g__KS41, which are commonly found in acidic forest soils 44 , and Methyloglobulus, found in lake sediments 45 . Microorganisms involved in carbon and nitrogen cycling processes were also identified.…”

Section: Community Structure Of a 2-million-year-old Microbiomementioning

confidence: 99%

A 2-million-year-old microbial and viral communities from the Kap København Formation in North Greenland

Fernàndez-Guerra¹,

Borrel²,

Delmont³

et al. 2023

Preprint

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Using ancient environmental DNA (eDNA) we reconstructed microbial and viral communities from the Kap København Formation in North Greenland. We find pioneer microbial communities, along with likely dormant methanogens from the permafrost's seed bank. Our findings reveal that at the time of the formation, the terrestrial input of the Kap København site originated from a palustrine wetland, suggesting non-permafrost conditions. During this time, detection of methanogenic archaea and carbon processing pathways suggests a moderate strengthening of methane emissions through the northward expansion of wetlands. Intriguingly, we discover a remarkable sequence similarity (>98%) between pioneer methanogens and present-day thawing permafrost counterparts. This suggests that not all microbes respond uniformly to environmental change over geological timescales, but that some microbial taxa's adaptability and resilience remain constant over time. Our findings further suggest that the composition of microbial communities is changing prior to plant communities as a result of global warming.

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“…The following supporting information can be downloaded at: https:// www.mdpi.com/article/10.3390/microorganisms10061140/s1, Table S1. Chemoautotroph organisms in nif H phylogenetic tree related with diazotrophs from Chile Bay [111][112][113][114][115][116].…”

Section: Supplementary Materialsmentioning

confidence: 99%

Dark Diazotrophy during the Late Summer in Surface Waters of Chile Bay, West Antarctic Peninsula

et al. 2022

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Although crucial for the addition of new nitrogen in marine ecosystems, dinitrogen (N2) fixation remains an understudied process, especially under dark conditions and in polar coastal areas, such as the West Antarctic Peninsula (WAP). New measurements of light and dark N2 fixation rates in parallel with carbon (C) fixation rates, as well as analysis of the genetic marker nifH for diazotrophic organisms, were conducted during the late summer in the coastal waters of Chile Bay, South Shetland Islands, WAP. During six late summers (February 2013 to 2019), Chile Bay was characterized by high NO3− concentrations (~20 µM) and an NH4+ content that remained stable near 0.5 µM. The N:P ratio was approximately 14.1, thus close to that of the Redfield ratio (16:1). The presence of Cluster I and Cluster III nifH gene sequences closely related to Alpha-, Delta- and, to a lesser extent, Gammaproteobacteria, suggests that chemosynthetic and heterotrophic bacteria are primarily responsible for N2 fixation in the bay. Photosynthetic carbon assimilation ranged from 51.18 to 1471 nmol C L−1 d−1, while dark chemosynthesis ranged from 9.24 to 805 nmol C L−1 d−1. N2 fixation rates were higher under dark conditions (up to 45.40 nmol N L−1 d−1) than under light conditions (up to 7.70 nmol N L−1 d−1), possibly contributing more than 37% to new nitrogen-based production (≥2.5 g N m−2 y−1). Of all the environmental factors measured, only PO43- exhibited a significant correlation with C and N2 rates, being negatively correlated (p < 0.05) with dark chemosynthesis and N2 fixation under the light condition, revealing the importance of the N:P ratio for these processes in Chile Bay. This significant contribution of N2 fixation expands the ubiquity and biological potential of these marine chemosynthetic diazotrophs. As such, this process should be considered along with the entire N cycle when further reviewing highly productive Antarctic coastal waters and the diazotrophic potential of the global marine ecosystem.

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Identification of a Metagenome-Assembled Genome of an Uncultured Methyloceanibacter sp. Strain Acquired from an Activated Sludge System Used for Landfill Leachate Treatment

Cited by 6 publications

References 16 publications

Microbially enhanced methane uptake under warming enlarges ecosystem carbon sink in a Tibetan alpine grassland

Microbially enhanced methane uptake under warming enlarges ecosystem carbon sink in a Tibetan alpine grassland

A 2-million-year-old microbial and viral communities from the Kap København Formation in North Greenland

Dark Diazotrophy during the Late Summer in Surface Waters of Chile Bay, West Antarctic Peninsula

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