Charles F. Delwiche

OmegaSwitch estimates dN/dS ratios across sites and evolutionary lineages using Bayesian Markov-modulated codon models, showing well-calibrated posterior intervals in simulations.

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

This paper introduces a phylogenetic occupancy model to infer gene presence in incomplete genomes, outperforming existing methods and enabling ancestral-state reconstruction.

This paper investigates the evolutionary origin of eukaryotic spliceosomal introns by analyzing group II introns in asgard archaea and proposes that introns originated from the archaeal genome, not mitochondria.

This study uses transcriptomic data to analyze the phylogeny of green algae and identify charophyte lineages related to embryophytes, finding strong support for Zygnematophyceae as the sister group.

The paper identifies a conserved mobile genetic element in SARS-CoV-2 and multiple insect genomes, suggesting its potential essentiality for viral function.