Christopher W. Benson

EDTA v2: enabling scalable TE annotation in animal genomes

EDTA v2 improves transposable element annotation in animal genomes by adding LINE/SINE detection and enhancing scalability and speed.

TEgenomeSimulator: A Flexible Framework for Simulating Genomes with Configurable Transposable Element Landscapes

TEgenomeSimulator generates synthetic genomes with configurable transposable element landscapes, offering greater flexibility and realism compared to existing simulators.

PrinTE: A Forward Simulation Framework for Studying the Role of Transposable Elements in Genome Expansion and Contraction

PrinTE simulates genome evolution driven by transposable elements, revealing that genome size is strongly correlated with LTR retrotransposon dynamics and suggesting genome expansion followed by contraction in A. psidii.

Chromosome-scale genome assembly of Poa trivialis and population genomics reveals widespread gene flow in a cool-season grass seed production system

This study assembles and annotates the genome of Poa trivialis and analyzes population genomics to reveal gene flow and human-assisted dispersal in seed production systems.

The genome of Salmacisia buchloëana, the parasitic puppetmaster pulling strings of sexual phenotypic monstrosities in buffalograss

This paper sequences and analyzes the genome of Salmacisia buchloëana, a parasitic fungus, identifying unique genomic features and potential mechanisms of host manipulation.