Todd H. Oakley

The paper shows adaptive molecular convergence is common across deep time but not linked to phenotypic convergence.

This study measures metabolic rates during courtship in bioluminescent ostracods, finding higher nighttime oxygen consumption in larger vessels allowing full displays.

The paper develops ML tools to improve genotype-phenotype prediction for opsin genes by introducing new methods and software.

The paper shows that weapon traits in sea anemones vary with local competition levels, indicating ecological drivers of morphological diversity.

The paper compares gene expression in convergent jellyfish eyes, finding mostly lineage-specific expression but shared conserved vision genes across species.

The paper presents a high-quality genome assembly of Bougainvillia cf. muscus, revealing synteny with other cnidarians and insights into vision-related gene evolution.

The paper identifies the origin of a luciferase gene from haloalkane dehalogenases in brittle stars and shows parallel evolution of bioluminescence across distant species.

The paper shows that bioluminescence in ostracods uses conserved secretory genes alongside novel pathways, supporting a 'legacy-plus-innovation' evolutionary model.

The paper introduces a database of opsin genotypes and λmax phenotypes and demonstrates regression-based ML models can predict λmax and identify functionally critical sites.

This paper reports the first complete life cycle and mitochondrial genome of the luminous ostracod Vargula tsujii, enabling future studies on bioluminescence biosynthesis and genomic manipulation.