@article{a7ba2ea5c7f34470bf6399fd0986ce1c,
title = "Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota",
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.",
author = "Seymour, {Cale O.} and Marike Palmer and Becraft, {Eric D.} and Ramunas Stepanauskas and Friel, {Ariel D.} and Frederik Schulz and Tanja Woyke and Emiley Eloe-Fadrosh and Dengxun Lai and Jiao, {Jian Yu} and Hua, {Zheng Shuang} and Lan Liu and Lian, {Zheng Han} and Li, {Wen Jun} and Maria Chuvochina and Finley, {Brianna K.} and Koch, {Benjamin J.} and Egbert Schwartz and Paul Dijkstra and Moser, {Duane P.} and Hungate, {Bruce A.} and Hedlund, {Brian P.}",
note = "Funding Information: We thank the staff of the Yunnan Tengchong Volcano and Spa Tourist Attraction Development Corporation for their assistance, amd the US Bureau of Land Management Las Vegas Office and the US Department of Agriculture Forest Service (permit SMA0556) for permission to sample springs in the Spring Mountains. Ash Meadows National Wildlife Refuge was sampled under US National Park Service permit DEVA-2009-SCI-005 and US Fish and Wildlife Service (USFWS) permit 84550-15-03. This work was funded by US National Science Foundation grants OIA-1826734 (B.P.H., D.P.M., R.S., C.O.S.), DEB-1441717 (R.S., D.P.M.), EAR-1516679 (A.D.F., B.P.H.) and DEB-1928924 (B.P.H., M.P.), and NASA Exobiology grant 80NSSC17K0548 (B.P.H., C.O.S., M.P.). The work (proposal: 10.46936/10.25585/60000876) conducted by the US Department of Energy Joint Genome Institute ( https://ror.org/04xm1d337 ), a DOE Office of Science User Facility, is supported by the Office of Science of the US Department of Energy operated under Contract No. DE-AC02-05CH11231 (F.S., T.W., E.E.-F.). Support was also provided by an Australian Research Council Laureate Fellowship (FL150100038) (M.C.). Additional support was provided by the National Natural Science Foundation of China (nos. 91951205) (W.-J.L.). The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript. Funding Information: We thank the staff of the Yunnan Tengchong Volcano and Spa Tourist Attraction Development Corporation for their assistance, amd the US Bureau of Land Management Las Vegas Office and the US Department of Agriculture Forest Service (permit SMA0556) for permission to sample springs in the Spring Mountains. Ash Meadows National Wildlife Refuge was sampled under US National Park Service permit DEVA-2009-SCI-005 and US Fish and Wildlife Service (USFWS) permit 84550-15-03. This work was funded by US National Science Foundation grants OIA-1826734 (B.P.H., D.P.M., R.S., C.O.S.), DEB-1441717 (R.S., D.P.M.), EAR-1516679 (A.D.F., B.P.H.) and DEB-1928924 (B.P.H., M.P.), and NASA Exobiology grant 80NSSC17K0548 (B.P.H., C.O.S., M.P.). The work (proposal: 10.46936/10.25585/60000876) conducted by the US Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a DOE Office of Science User Facility, is supported by the Office of Science of the US Department of Energy operated under Contract No. DE-AC02-05CH11231 (F.S., T.W., E.E.-F.). Support was also provided by an Australian Research Council Laureate Fellowship (FL150100038) (M.C.). Additional support was provided by the National Natural Science Foundation of China (nos. 91951205) (W.-J.L.). The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript. Publisher Copyright: {\textcopyright} 2023, The Author(s).",
year = "2023",
month = apr,
doi = "10.1038/s41564-022-01319-1",
language = "English (US)",
volume = "8",
pages = "727--744",
journal = "Nature Microbiology",
issn = "2058-5276",
publisher = "Nature Publishing Group",
number = "4",
}