Andrew J. Roger

CoMR improves mitochondrial proteome reconstruction by integrating multiple evidence sources, achieving better performance than standalone predictors in both model and non-model eukaryotes.

The paper presents a chromosome-scale genome assembly of Halocafeteria seosinensis using long-read sequencing, enabling detailed genomic analysis of a halophilic protist.

GTRspmix improves protein phylogenetics by incorporating multiple exchangeability matrices into mixture models, enhancing fit and reducing long-branch attraction artifacts.

The paper improves the GFmix model to better handle site-and-branch compositional heterogeneity in phylogenetic inference, showing improved accuracy in tree estimation.

The paper describes a new anaerobic Legionellales symbiont in Anaeramoeba pumila, highlighting its unique metabolic strategies and genomic features.

This study investigates the evolutionary pathways of anaerobic mitochondrial adaptations in breviate protists by analyzing transcriptomes and predicting MRO proteomes across eight species.

The paper investigates genome evolution in pelagophyte algae, identifying lateral gene transfers contributing to pangenome diversity and ecological success.

The paper reports mitochondrial genomes from three Ancyromonadida protists, revealing novel gene features and expanding the known mitochondrial gene repertoire of ancestral eukaryotes.

Eukfinder is a pipeline that recovers high-quality eukaryotic microbial genomes from metagenomic data, outperforming existing tools in assembling near-complete genomes without a reference.

This study estimates the root of the eukaryote Tree of Life using mitochondrial proteins, finding it between Opimoda+ and Diphoda+ supergroups.

The paper describes a new genus of anaerobic flagellate, Skoliomonas, found in soda lake environments, and places it phylogenetically within the Metamonada clade.

The paper introduces GTRpmix, a model for profile mixture models that improves exchangeability matrix estimation for site-heterogeneous data, enhancing phylogenetic accuracy.

The paper investigates mitochondrial reduction in free-living metamonads, finding extreme reduction in some species, including loss of mitochondrial functions and pathways.

This study identifies PML and PML-like exonucleases as cytoplasmic suppressors of LINE-1 retrotransposition in jawed vertebrates, showing functional conservation across species.