Evan S. Forsythe

Evolutionary rates provide genomic insights into convergent and lineage-specific evolution in carnivorous plants

This study examines evolutionary rate shifts in carnivorous plants to understand convergent and lineage-specific genomic adaptations.

Gene repertoire expansion and cis-regulatory diversification shaped 26S proteasome evolution within a proteostasis-centered network

This study investigates the evolution of the 26S proteasome in plants by analyzing gene repertoires, cis-regulatory elements, and regulatory networks, revealing conserved and lineage-specific mechanisms.

Detecting cryptic ghost lineage introgression in four-taxon genomic datasets

This paper introduces ghostbuster, a statistical test to detect ghost lineage introgression in genomic data, showing it accurately identifies such events in simulations and corrects a previously misinterpreted introgression in Brassicaceae.

Correlated evolutionary rates reveal novel components and cross-compartment connectivity in plant proteostasis systems

The paper uses evolutionary rate covariation to identify a novel plant proteostasis module involving non-plastid-localized proteins.

Reciprocal exchange obscures phylogenetic patterns of introgression

The paper identifies reciprocal introgression as a hidden process that distorts phylogenetic patterns and introgression detection, showing it produces conflicting signals that obscure true introgression events.

Plant MutS2 proteins function in plastid ribosome quality control

This study identifies MutS2A and MutS2B as critical for plastid ribosome quality control in Arabidopsis, resolving ribosome collisions and supporting tissue greening during de-etiolation.

Squeakuences: a portable tool for formatting squeaky-clean sequences to eliminate bioinformatic software incompatibilities

Squeakuences automates FASTA file formatting to resolve bioinformatic software incompatibilities by cleaning sequence identifiers.

Phylogenomic prediction of interaction networks in the presence of gene duplication

The paper introduces ERCnet, a tool for predicting protein interaction networks using phylogenetic analysis of evolutionary rate covariation, showing improved accuracy over existing methods.

Evolutionary and biochemical analyses reveal conservation of the Brassicaceae telomerase ribonucleoprotein complex

The paper investigates the evolution and function of telomerase in Brassicaceae plants, finding that TER1 and TER2 are not functional telomerase RNAs and identifying a conserved telomerase RNA locus.

CyMIRA: The Cytonuclear Molecular Interactions Reference for Arabidopsis

The paper introduces CyMIRA, a curated database of cytonuclear molecular interactions in Arabidopsis, to standardize and compare studies on evolutionary genomic data.

Biased gene retention in the face of massive nuclear introgression obscures species relationships

The paper shows that introgressive hybridization between Arabidopsis relatives leads to biased gene retention, obscuring species relationships due to nuclear introgression.