Full Genome Sequence of a
            <i>Methanomassiliicoccales</i>
            Representative Enriched from Peat Soil

Weil, Micha; Hoff, Katharina J.; Meißner, Walter; Schäfer, Fabian; Söllinger, Andrea; Wang, Haitao; Hagenau, Lisa; Kuß, Andreas W.; Urich, Tim

doi:10.1128/mra.00443-21

Cited by 7 publications

(10 citation statements)

References 33 publications

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“…Hence, we formally propose the new genus Methanomethylophilus as the type genus for the new family Methanomethylophilaceae , with the new species Methanomethylophilus alvi as the type species (see section “Taxonomy”). We also propose to include the new genera Methanarcanum , Methanogranum , Methanoplasma , and Methanoprimaticola in this family to accommodate other highly enriched cultures with sequenced genomes that so far have only Candidatus status ( Iino et al, 2013 ; Lang et al, 2015 ; Weil et al, 2021 ; Chibani et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods

Protasov,

Nonoh,

Kästle Silva

et al. 2023

Front. Microbiol.

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Methane emission by terrestrial invertebrates is restricted to millipedes, termites, cockroaches, and scarab beetles. The arthropod-associated archaea known to date belong to the orders Methanobacteriales, Methanomassiliicoccales, Methanomicrobiales, and Methanosarcinales, and in a few cases also to non-methanogenic Nitrososphaerales and Bathyarchaeales. However, all major host groups are severely undersampled, and the taxonomy of existing lineages is not well developed. Full-length 16S rRNA gene sequences and genomes of arthropod-associated archaea are scarce, reference databases lack resolution, and the names of many taxa are either not validly published or under-classified and require revision. Here, we investigated the diversity of archaea in a wide range of methane-emitting arthropods, combining phylogenomic analysis of isolates and metagenome-assembled genomes (MAGs) with amplicon sequencing of full-length 16S rRNA genes. Our results allowed us to describe numerous new species in hitherto undescribed taxa among the orders Methanobacteriales (Methanacia, Methanarmilla, Methanobaculum, Methanobinarius, Methanocatella, Methanoflexus, Methanorudis, and Methanovirga, all gen. nova), Methanomicrobiales (Methanofilum and Methanorbis, both gen. nova), Methanosarcinales (Methanofrustulum and Methanolapillus, both gen. nova), Methanomassiliicoccales (Methanomethylophilaceae fam. nov., Methanarcanum, Methanogranum, Methanomethylophilus, Methanomicula, Methanoplasma, Methanoprimaticola, all gen. nova), and the new family Bathycorpusculaceae (Bathycorpusculum gen. nov.). Reclassification of amplicon libraries from this and previous studies using this new taxonomic framework revealed that arthropods harbor only CO2 and methyl-reducing hydrogenotrophic methanogens. Numerous genus-level lineages appear to be present exclusively in arthropods, suggesting long evolutionary trajectories with their termite, cockroach, and millipede hosts, and a radiation into various microhabitats and ecological niches provided by their digestive tracts (e.g., hindgut compartments, gut wall, or anaerobic protists). The distribution patterns among the different host groups are often complex, indicating a mixed mode of transmission and a parallel evolution of invertebrate and vertebrate-associated lineages.

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Section: Discussionmentioning

confidence: 99%

Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods

Protasov,

Nonoh,

Kästle Silva

et al. 2023

Front. Microbiol.

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“…Metagenomic and metataxonomic studies have revealed the global environmental distribution of Methanomassiliicoccales representatives [4,7,52,53] and a particular association with the gut microbiomes of animals [3,4,19], including ruminants [54,55] and humans [5,6,56]. Over the last 10 years, multiple enrichment cultures of Methanomassiliicoccales have been described [1,4,7,9,10,13,14,17,18], although only one generalist member (M. luminyensis B10 T ) of this order has been obtained in axenic culture and described so far [2]. Here, we report the description of a second hydrogenotrophic methyl-reducing methanogen representative of this order (strain Mx-05 T ), being the first isolate of a familylevel clade associated with the gut microbiome of various animals.…”

Section: Discussionmentioning

confidence: 99%

“…A closely related species, 'Candidatus Methanomassiliicoccus intestinalis', was enriched from a human fecal sample [9] and is more prevalent in human populations than M. luminyensis [5,6]. Two additional enrichment cultures of Methanomassiliicoccaceae were generated from freshwater sediment [7] and peat soil [10]. A second family-level lineage within the Methanomassiliicoccales family was retrieved primarily from samples of the gut environment.…”

Section: Introductionmentioning

confidence: 99%

Methanomethylophilus alvi gen. nov., sp. nov., a Novel Hydrogenotrophic Methyl-Reducing Methanogenic Archaea of the Order Methanomassiliicoccales Isolated from the Human Gut and Proposal of the Novel Family Methanomethylophilaceae fam. nov.

Borrel,

Fadhlaoui,

Ben Hania

et al. 2023

Microorganisms

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The methanogenic strain Mx-05T was isolated from the human fecal microbiome. A phylogenetic analysis based on the 16S rRNA gene and protein marker genes indicated that the strain is affiliated with the order Methanomassiliicoccales. It shares 86.9% 16S rRNA gene sequence identity with Methanomassiliicoccus luminyensis, the only member of this order previously isolated. The cells of Mx-05T were non-motile cocci, with a diameter range of 0.4–0.7 μm. They grew anaerobically and reduced methanol, monomethylamine, dimethylamine, and trimethylamine into methane, using H2 as an electron donor. H2/CO2, formate, ethanol, and acetate were not used as energy sources. The growth of Mx-05T required an unknown medium factor(s) provided by Eggerthella lenta and present in rumen fluid. Mx-05T grew between 30 °C and 40 °C (optimum 37 °C), over a pH range of 6.9–8.3 (optimum pH 7.5), and between 0.02 and 0.34 mol.L−1 NaCl (optimum 0.12 mol.L−1 NaCl). The genome is 1.67 Mbp with a G+C content of 55.5 mol%. Genome sequence annotation confirmed the absence of the methyl branch of the H4MPT Wood–Ljungdahl pathway, as described for other Methanomassiliicoccales members. Based on an average nucleotide identity analysis, we propose strain Mx-05T as being a novel representative of the order Methanomassiliicoccales, within the novel family Methanomethylophilaceae, for which the name Methanomethylophilus alvi gen. nov, sp. nov. is proposed. The type strain is Mx-05T (JCM 31474T).

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“…Table 4 [123][124][125][126][127][128][129][130][131][132][133][134][135][136][137][138][139][140][141][142] illustrates two fundamental principles about our connection to microbes: 1) We are intimately connected to Earth's microbes, 2) Even if much of our microbiome has some stability, we are constantly exchanging microbes, microbial genes, physiologically-modifying chemicals, and gathering information from and sharing information with the microbes beyond our body. The human body is open to the environment.…”

Section: Connecting To the Iom Via Meditation Embodied Cognition And ...mentioning

confidence: 99%

“…An examination of ancient archaea and extremeophile bacteria reflected in Table 4 shows that we embody not only our ancestral history but also that of life on Earth. In the Table 's first example, an archaean representative of Methanomassiliicoccales (designated as strain U3.2.1) was isolated via an enrichment culture from a Northern Germany peat soil and was shown to have a sequence identity with the 16S rRNA gene of human gut-isolated Methanomassiliicoccus luminyensis 10B of 88.6% [123]. Methanogenesis is an important process of life on Earth and can be significant in specialized ecological niches within our body.…”

confidence: 99%

The Embodied Microbiome

Dietert

2023

AJBSR

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Microbes are the most prevalent and widely distributed life form on planet Earth. They are also cognitive organisms with memory and superior problem-solving skills that use quantum phase transitions during their remarkably effective gathering and dissemination of information. This narrative review explores the biological ramifications of human holobionts physically embodying the human microbiome and connecting to the Internet of Microbes (IOM) beyond our body. Within the narrative review, we consider:the ways in which our microbial co-partners exerted control over our ancestors and continue to influence our current human generation. 2)how they mold virtually every key aspect of our life and even remain with our body in death 3) how inward-looking contemplative tools such as meditation and embodied cognition provide an ideal opportunity to connect to the vast microbial network and tap the full range of human holobiont capabilities.

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Full Genome Sequence of a Methanomassiliicoccales Representative Enriched from Peat Soil

Cited by 7 publications

References 33 publications

Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods

Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods

Methanomethylophilus alvi gen. nov., sp. nov., a Novel Hydrogenotrophic Methyl-Reducing Methanogenic Archaea of the Order Methanomassiliicoccales Isolated from the Human Gut and Proposal of the Novel Family Methanomethylophilaceae fam. nov.

The Embodied Microbiome

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