L. Eme

Nucleomorph phylogenomics suggests a deep and ancient origin of cryptophyte plastids within Rhodophyta

The paper uses nucleomorph genes to reconstruct the phylogeny of cryptophyte plastids, finding they are sister to Cyanidiophytina, suggesting an ancient origin of red complex plastids outside known Rhodophyta subgroups.

Extremely acidic proteomes and metabolic flexibility in bacteria and highly diversified archaea thriving in geothermal chaotropic brines

The paper analyzes metagenomes and proteomes from geothermal brines to show that archaea and bacteria have highly acidic proteomes and metabolic flexibility in extreme salinity conditions.

A gene-rich mitochondrion with a unique ancestral protein transport system

This paper describes the mitogenome of Mantamonas sphyraenae, which has the most gene-rich mitochondrial genome outside of jakobids, encoding a complete mitochondrial Sec translocation system.

Repeated duplications and losses shaped SMC complex evolution from archaeal ancestors to modern eukaryotes

This study reconstructs the evolution of SMC complexes across eukaryotes, showing LECA had all four types and condensin II was repeatedly lost.

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

This study analyzes five new Korarchaeota metagenome-assembled genomes to reveal their phylogenomic position and genomic adaptations to habitat switching.

Several independent adaptations of archaea to hypersaline environments

This study resolves the phylogeny of extremely halophilic archaea and identifies four independent adaptations to hypersaline environments through phylogenomic analysis and gene transfer mechanisms.

Molecular and morphological characterisation of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida

The paper characterizes four new ancyromonad genera and updates their taxonomy using morphology, behavior, and molecular phylogenetic analyses.

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

The paper reconstructs the evolutionary ancestry of eukaryotes by analyzing Asgard archaea phylogenetic data and infers the last common ancestor of Asgard archaea and eukaryotes as a thermophilic chemolithotroph.

Eukaryote-to-eukaryote gene transfer pervades the genome evolution of Rhizaria

This study estimates that 8-20% of rhizarian genes were acquired through eukaryote-to-eukaryote lateral gene transfer, with transfers from other eukaryotes showing distinct genomic signatures.

Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria

This paper reports genome and transcriptome analyses of two Preaxostyla species, confirming the complete loss of mitochondria in multiple oxymonad species and suggesting amitochondriality is common in the group.

A closed Candidatus Odinarchaeum genome exposes Asgard archaeal viruses

The paper reports a closed genome of Ca. Odinarchaeum and identifies related viruses, providing insights into Asgard archaea's virome and ecology.

Conservation of the Toxoplasma conoid complex proteome reveals a cryptic conoid in Plasmodium that differentiates between blood- and vector-stage zoites

The paper uses spatial proteomics and microscopy to show the conoid is conserved across apicomplexans, including Plasmodium, with structural differences between blood and vector stages.

Marine sediments illuminate Chlamydiae diversity and evolution

The paper reports high abundance and diversity of novel Chlamydiae lineages in marine sediments, revealing their ecological significance and genomic diversity.

New Asgard archaea capable of anaerobic hydrocarbon cycling

The paper identifies a new archaeal phylum, Helarchaeota, capable of anaerobic hydrocarbon oxidation, based on genomic analysis of deep-sea sediment metagenomes.