Ettema, Thijs J. G.


Publications
11

Phylogenomics and ancestral reconstruction of Korarchaeota reveals genomic adaptation to habitat switching

Citation
Tahon et al. (2023).
Names
“Korarchaeum calidifontum” “Caldabyssikora” “Korarchaeum” “Caldabyssikoraceae” “Caldabyssikora taketomiensis” “Caldabyssikora guaymasensis” “Thermotainarokoraceae” “Thermotainarokora guaymasensis” “Thermotainarokora taketomiensis” “Hydrocaminikoraceae”
Abstract
AbstractOur knowledge of archaeal diversity and evolution has expanded rapidly in the past decade. However, hardly any genomes of the phylum Korarchaeota have been obtained due to the difficulty in accessing their natural habitats and – possibly – their limited abundance. As a result, many aspects of Korarchaeota biology, physiology and evolution remain enigmatic. Here, we expand this phylum with five high-quality metagenome-assembled genomes. This improved taxon sampling combined with sophistic

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

Citation
Eme et al. (2023). Nature 618 (7967)
Names
Asgardarchaeota
Abstract
AbstractIn the ongoing debates about eukaryogenesis—the series of evolutionary events leading to the emergence of the eukaryotic cell from prokaryotic ancestors—members of the Asgard archaea play a key part as the closest archaeal relatives of eukaryotes1. However, the nature and phylogenetic identity of the last common ancestor of Asgard archaea and eukaryotes remain unresolved2–4. Here we analyse distinct phylogenetic marker datasets of an expanded genomic sampling of Asgard archaea and evalua

Genomic diversity and biosynthetic capabilities of sponge-associated chlamydiae

Citation
Dharamshi et al. (2022). The ISME Journal 16 (12)
Names
“Parasimkaniaceae”
Abstract
AbstractSponge microbiomes contribute to host health, nutrition, and defense through the production of secondary metabolites.Chlamydiae, a phylum of obligate intracellular bacteria ranging from animal pathogens to endosymbionts of microbial eukaryotes, are frequently found associated with sponges. However, sponge-associated chlamydial diversity has not yet been investigated at the genomic level and host interactions thus far remain unexplored. Here, we sequenced the microbiomes of three sponge s

A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses

Citation
Tamarit et al. (2022). Nature Microbiology 7 (7)
Names
Ca. Odinarchaeum yellowstonii
Abstract
AbstractAsgard archaea have recently been identified as the closest archaeal relatives of eukaryotes. Their ecology, and particularly their virome, remain enigmatic. We reassembled and closed the chromosome of Candidatus Odinarchaeum yellowstonii LCB_4, through long-range PCR, revealing CRISPR spacers targeting viral contigs. We found related viruses in the genomes of diverse prokaryotes from geothermal environments, including other Asgard archaea. These viruses open research avenues into the ec

A closed Candidatus Odinarchaeum genome exposes Asgard archaeal viruses

Citation
Tamarit et al. (2021).
Names
Ca. Odinarchaeum yellowstonii
Abstract
Asgard archaea have recently been identified as the closest archaeal relatives of eukaryotes. Their ecology remains enigmatic, and their virome, completely unknown. Here, we describe the closed genome of Ca. Odinarchaeum yellowstonii LCB_4, and, from this, obtain novel CRISPR arrays with spacer targets to several viral contigs. We find related viruses in sequence data from thermophilic environments and in the genomes of diverse prokaryotes, including other Asgard archaea. These novel viruses ope

Asgard archaea capable of anaerobic hydrocarbon cycling

Citation
Seitz et al. (2019). Nature Communications 10 (1)
Names
Abstract
AbstractLarge reservoirs of natural gas in the oceanic subsurface sustain complex communities of anaerobic microbes, including archaeal lineages with potential to mediate oxidation of hydrocarbons such as methane and butane. Here we describe a previously unknown archaeal phylum, Helarchaeota, belonging to the Asgard superphylum and with the potential for hydrocarbon oxidation. We reconstruct Helarchaeota genomes from metagenomic data derived from hydrothermal deep-sea sediments in the hydrocarbo

Draft Genome Sequence of “ Candidatus Moanabacter tarae,” Representing a Novel Marine Verrucomicrobial Lineage

Citation
Vosseberg et al. (2018). Microbiology Resource Announcements 7 (15)
Names
Ca. Moanabacter tarae
Abstract
The Tara Oceans Consortium has published various metagenomes of marine environmental samples. Here, we report a contig of 2.6 Mbp from the assembly of a sample collected near the Marquesas Islands in the Pacific Ocean, covering a nearly complete novel verrucomicrobial genome.

Asgard archaea illuminate the origin of eukaryotic cellular complexity

Citation
Zaremba-Niedzwiedzka et al. (2017). Nature 541 (7637)
Names
Asgardarchaeota “Odinarchaeota”
Abstract

Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea

Citation
Baker et al. (2016). Nature Microbiology 1 (3)
Names
Hadarchaeum yellowstonense Ts
Abstract
AbstractThe subsurface biosphere is largely unexplored and contains a broad diversity of uncultured microbes1. Despite being one of the few prokaryotic lineages that is cosmopolitan in both the terrestrial and marine subsurface2–4, the physiological and ecological roles of SAGMEG (South-African Gold Mine Miscellaneous Euryarchaeal Group) Archaea are unknown. Here, we report the metabolic capabilities of this enigmatic group as inferred from genomic reconstructions. Four high-quality (63–90% comp