John M. Archibald

The paper uses proteomics to confirm the presence of canonical histones and histone-like proteins in dinoflagellates, revealing conserved features of histone biology and new insights into dinoflagellate chromatin structure.

The paper characterizes starch metabolism pathways in dinoflagellates, chromerids, and apicomplexans, revealing evolutionary adaptations linked to plastid endosymbiosis.

The paper identifies a new viral order, Skiavirales, in marine protists through long-read sequencing and shows gene exchange between viruses and host genomes.

The paper identifies 41 endogenous polinton-like viruses and 36 virophage sequences in the genome of Halocafeteria seosinensis, revealing genetic exchange and co-occurrence of these viral elements.

This paper develops CRISPR/Cas9 tools for genome editing in Acanthamoeba castellanii and demonstrates successful gene editing through knock-in experiments.

The paper analyzes the nuclear genomes of Mesodinium rubrum and finds it lacks spliceosomal introns and related machinery, suggesting introns hinder endosymbiotic genomic integration.

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

The paper uses full-length 16S rRNA gene sequencing to distinguish tick-adapted and environmentally derived bacteria in Ixodes scapularis ticks, showing environmental bacteria are not contaminants.

The paper identifies DNA polymerase III subunit genes in plastid-targeted genomes of Teleaulax and related taxa, revealing their role in plastid DNA replication during kleptoplastidy.

The paper describes the phylogenetic and morphological analysis of 17 novel Labyrinthulomycetes strains from Nova Scotia, identifying them as three genera and expanding genetic diversity in Atlantic Canadian waters.

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

The paper investigates viral lateral gene transfer in Acanthamoeba, showing viral insertions are epigenetically silenced and subject to deterioration over time.

The paper analyzes SNP and structural variant allele frequencies in Acanthamoeba castellanii to reveal dynamic and variable ploidy across chromosome-scale scaffolds.

This study investigates how A. castellanii handles foreign DNA by analyzing transgene integration and proposing a mechanism involving tandem duplication and telomere addition.

The paper uses targeted metagenomics to analyze UCYN-A and its algal host in coastal Northwest Atlantic waters, revealing pangenomic diversity and co-occurring microbes.

The paper presents a chromosome-scale genome assembly of Aurantiochytrium limacinum, revealing novel subtelomeric rDNA repeats and herpes-like viral elements.

The paper presents chromosome-scale genome assemblies of Acanthamoeba castellanii and shows infection-induced chromatin reorganization during Legionella pneumophila infection.