ArticleThe ISME journal2019
Phylogenomics suggests oxygen availability as a driving force in Thaumarchaeota evolution.
Article in The ISME journal, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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69 citing papers in PubMed.
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- Environmental Controls on Crenarchaeol Distributions in Hydrothermal Springs.Environmental microbiology · 2026Article
- Genomic adaptation strategies to habitat switching in Korarchaeota.Science advances · 2026Article
- Close spatial and metabolic association between heterotrophic and ammonia-oxidizing marine Nitrososphaerota.ISME communications · 2026Article
- D-amino acid metabolic versatility as a common adaptive strategy in the Mariana Trench microbiome.mSystems · 2025Article
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- Purifying selection and low recombination facilitated sequential colonization of benthic and pelagic coastal ocean by ammonia-oxidizing archaea.ISME communications · 2025Article
- Novel hot spring Thermoproteota support vertical inheritance of ammonia oxidation and carbon fixation in Nitrososphaeria.Access microbiology · 2025Article
- Biogeography of soda lake microbiome and uneven cross-continent transition rates.Frontiers in microbiology · 2025Article
- Nutritional niches of potentially endemic, facultatively anaerobic heterotrophs from an isolated Antarctic terrestrial hydrothermal refugium elucidated through metagenomics.Environmental microbiome · 2024Article
- Geothermal ecosystems on Mt. Erebus, Antarctica, support diverse and taxonomically novel biota.FEMS microbiology ecology · 2024Article
- Thaumarchaeota from deep-sea methane seeps provide novel insights into their evolutionary history and ecological implications.Microbiome · 2024Article
- Covariation of hot spring geochemistry with microbial genomic diversity, function, and evolution.Nature communications · 2024Article
- Dating Ammonia-Oxidizing Bacteria with Abundant Eukaryotic Fossils.Molecular biology and evolution · 2024Article
- Gene inversion led to the emergence of brackish archaeal heterotrophs in the aftermath of the Cryogenian Snowball Earth.PNAS nexus · 2024Article
9 more citing papers are in PubMed but not listed here.
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Authors and funding
14 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Ammonia-oxidizing archaea (AOA) of the phylum Thaumarchaeota are widespread in marine and terrestrial habitats, playing a major role in the global nitrogen cycle. However, their evolutionary history remains unexplored, which limits our understanding of their adaptation mechanisms. Here, our comprehensive phylogenomic tree of Thaumarchaeota supports three sequential events: origin of AOA from terrestrial non-AOA ancestors, colonization of the shallow ocean, and expansion to the deep ocean. Careful molecular dating suggests that these events coincided with the Great Oxygenation Event around 2300 million years ago (Mya), and oxygenation of the shallow and deep ocean around 800 and 635-560 Mya, respectively. The first transition was likely enabled by the gain of an aerobic pathway for energy production by ammonia oxidation and biosynthetic pathways for cobalamin and biotin that act as cofactors in aerobic metabolism. The first transition was also accompanied by the loss of dissimilatory nitrate and sulfate reduction, loss of oxygen-sensitive pyruvate oxidoreductase, which reduces pyruvate to acetyl-CoA, and loss of the Wood-Ljungdahl pathway for anaerobic carbon fixation. The second transition involved gain of a K
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