John K. Colbourne

Discovery and evaluation of cadmium-adapted Daphnia pulex genotypes in a region of historical mining reveals adaptation protects the germline from cadmium-induced mutations

The paper identifies cadmium-adapted Daphnia pulex genotypes and shows they have reduced germline mutations under cadmium exposure compared to nonadapted genotypes.

Conserved Molecular Responses to Arsenite Exposure in Drosophila melanogaster

This study identifies conserved molecular responses to arsenite exposure in Drosophila, revealing shared pathways with human arsenic-related diseases.

Phylogeny and gene function integration uncovers multiple convergences in multicellular and terrestrial transitions

The paper integrates phylogenomics and functional annotations to trace gene function evolution across species, revealing convergent adaptations in multicellular and terrestrial transitions.

Refining the evolutionary time machine: an assessment of whole genome amplification using single historical Daphnia eggs

The paper develops and evaluates a whole genome amplification workflow for historical Daphnia eggs, achieving sufficient DNA for sequencing and revealing mitochondrial genome coverage from over 300-year-old samples.

Broccoli: combining phylogenetic and network analyses for orthology assignment

Broccoli improves orthology assignment by combining phylogenetic and network analyses, outperforming existing pipelines on benchmark datasets.