The paper generates a high-quality axolotl genome assembly and identifies conserved non-coding elements linked to regeneration and cis-regulatory functions.

bioRxiv · Oct 31, 2026 · PreprintGenomics

The hagfish genome and the evolution of vertebrates

Ferdinand Marlétaz, Nataliya Y. Timoshevskaya, Vladimir A. Timoshevskiy, Elise Parey, Oleg Simakov, Daria Gavriouchkina, Masakazu Suzuki, Kaoru Kubokawa, Sydney Brenner, Jeramiah J. Smith, Daniel S. Rokhsar

This study analyzes the hagfish genome to understand vertebrate evolution, identifying ancient genome duplications and their functional roles in vertebrate innovations.

Nature · Jan 23, 2024Peer-reviewedGenomics

Content of and interactions between repetitive elements in programmatically eliminated chromosomes of the sea lamprey (Petromyzon marinus)

Vladimir A. Timoshevskiy, Nataliya Y. Timoshevskaya, Jeramiah J. Smith

The paper identifies repetitive elements specific to eliminated chromosomes in sea lamprey embryos and links them to chromosome elimination mechanisms.

Genes · Oct 22, 2019Peer-reviewedGenetics

A Chromosome-Scale Assembly of the Enormous (32 Gb) Axolotl Genome

Jeramiah J. Smith, Nataliya Y. Timoshevskaya, Vladimir A. Timoshevskiy, Melissa C. Keinath, Drew Hardy, S. Randal Voss

This paper presents a chromosome-scale assembly of the axolotl genome, enabling large-scale genomic analyses and resolving orthologies and phenotypic features.

Genome Research · Feb 1, 2019Peer-reviewedGenomics

Miniscule differences between the sex chromosomes in the giant genome of a salamander, Ambystoma mexicanum

Melissa C. Keinath, Nataliya Timoshevskaya, Vladimir A. Timoshevskiy, S. Randal Voss, Jeramiah J. Smith

The paper identifies a tiny W-specific region in the axolotl genome containing a duplicated ATRX gene, suggesting it as a candidate for the sex-determining locus or a sexually antagonistic gene.

bioRxiv · Jun 22, 2018 · PreprintEvolutionary Biology