Katelyn A. McNair

This study isolates and characterizes three novel Crassvirales phages infecting Bacteroides cellulosilyticus WH2, revealing they do not co-evolve with their hosts and share a conserved tail spike protein involved in host interaction.

The paper quantifies the benefits and costs of prophages in bacterial genomes, showing uniform prophage density and estimating their energetic contribution.

The paper introduces a machine-learning method to predict programmed ribosomal frameshifts with over 90% accuracy, addressing a gap in automated detection tools.

The paper presents a gold-standard dataset of manually curated bacterial genomes and a framework to evaluate prophage prediction algorithms, showing their performance metrics across seven tools.

The paper introduces multiPhATE2, a tool for functional annotation and comparative genomics of bacteriophage genomes, with improved scalability and additional search algorithms.

multiPhATE is a pipeline for annotating phage genomes, demonstrating its use on Yersinia pestis phage genomes and providing open-source tools for scalable phage annotation.

THEA improves gene prediction in phage genomes by exploiting their compact structure, identifying more genes than existing tools which are validated as functional.