Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota
Seymour, C.O.; Palmer, M.; Becraft, E.D.; Stepanauskas, R.; Friel, A.D.; Schulz, F.; Woyke, T.; Eloe-Fadrosh, E.; Lai, D.; Jiao, J.-Y.; Hua, Z.-S.; Liu, L.; Lian, Z.-H.; Li, W.-J.; Chuvochina, M.; Finley, B.K.; Koch, B.J.; Schwartz, E.; Dijkstra, P.; Moser, D.P.; Hungate, B.A.; Hedlund, B.P. (2023). Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota. Nature Microbiology 8(4): 727-744. https://dx.doi.org/10.1038/s41564-022-01319-1
In: Nature Microbiology. Springer Nature: London. ISSN 2058-5276, more
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| Authors | | Top |
- Seymour, C.O.
- Palmer, M.
- Becraft, E.D.
- Stepanauskas, R.
- Friel, A.D.
- Schulz, F.
- Woyke, T.
- Eloe-Fadrosh, E.
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- Lai, D.
- Jiao, J.-Y.
- Hua, Z.-S.
- Liu, L.
- Lian, Z.-H.
- Li, W.-J.
- Chuvochina, M.
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- Finley, B.K.
- Koch, B.J.
- Schwartz, E.
- Dijkstra, P.
- Moser, D.P.
- Hungate, B.A.
- Hedlund, B.P.
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| Abstract |
Candidate bacterial phylum Omnitrophota has not been isolated and is poorly understood. We analysed 72 newly sequenced and 349 existing Omnitrophota genomes representing 6 classes and 276 species, along with Earth Microbiome Project data to evaluate habitat, metabolic traits and lifestyles. We applied fluorescence-activated cell sorting and differential size filtration, and showed that most Omnitrophota are ultra-small (~0.2 μm) cells that are found in water, sediments and soils. Omnitrophota genomes in 6 classes are reduced, but maintain major biosynthetic and energy conservation pathways, including acetogenesis (with or without the Wood-Ljungdahl pathway) and diverse respirations. At least 64% of Omnitrophota genomes encode gene clusters typical of bacterial symbionts, suggesting host-associated lifestyles. We repurposed quantitative stable-isotope probing data from soils dominated by andesite, basalt or granite weathering and identified 3 families with high isotope uptake consistent with obligate bacterial predators. We propose that most Omnitrophota inhabit various ecosystems as predators or parasites. |
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