E. Susko

Several independent adaptations of archaea to hypersaline environments

This study resolves the phylogeny of extremely halophilic archaea and identifies four independent adaptations to hypersaline environments through phylogenomic analysis and gene transfer mechanisms.

Is Over-parameterization a Problem for Profile Mixture Models?

This study shows over-parameterization does not harm profile mixture models for phylogenetic analysis, even with many amino acid frequency classes, and simple models perform worse.

Conditions under which distributions of edge length ratios on phylogenetic trees can be used to order evolutionary events

The paper examines conditions under which edge length ratios on phylogenetic trees can order evolutionary events, highlighting limitations of molecular clock assumptions.

MLS3: A New Type of Multilevel Selection

The paper introduces MLS3, a new type of multilevel selection where communities disperse into occupied spaces, leading to evolutionary outcomes shaped by inter-species altruism.

The ups and downs of amino acid co-evolution: evolutionary Stokes and anti-Stokes shifts

The paper identifies evolutionary Stokes and anti-Stokes shifts in amino acid propensities, showing that both can arise from epistatic interactions and that stabilizing substitutions are permissive while destabilizing ones are restrictive.

An updated phylogeny of the Alphaproteobacteria reveals that the Rickettsiales and Holosporales have independent origins

The paper updates the phylogeny of Alphaproteobacteria, showing Rickettsiales and Holosporales have independent origins, with Holosporales nested within Rhodospirillales.