Carlos Vargas-Chávez

The paper investigates genomic mechanisms underlying independent transitions to terrestrial life across species, finding lineage-specific gene changes that converge functionally.

LINGUINE improves ancestral linkage group inference by using orthogroups and a Hidden Markov Model to handle gene loss and paralogy, outperforming existing methods in nematodes and clitellate annelids.

The paper identifies conserved gene networks in lungfish estivation that were co-opted for terrestrial adaptation through ancient gene duplications.

The paper shows that clitellates experienced a burst of genomic rearrangements leading to loss of macrosynteny with marine annelids and new chromosomal interactions.

This study identifies gene gain and regulatory shifts in terrestrial planarians as key mechanisms for terrestrialization, showing distinct stress response toolkits compared to freshwater relatives.

MATEdb2 provides high-quality proteomes for nearly 1000 animal species to enhance phylogenomic research by reducing computational effort and standardizing data formats.

The paper identifies new transposable element consensus sequences in Drosophila montana and links them to cold tolerance and genomic structural variation.

The paper annotates transposable elements in urban Anopheles coluzzii genomes and identifies potential adaptive TE insertions related to insecticide resistance and immune function.

The paper presents the genome of Sitophilus oryzae, revealing high transposable element content and host-symbiont metabolic interactions.