Juerg Ernst Frey

GenomeCompendium is a database that integrates repeat, assembly quality, and functional content data from complete prokaryotic genomes to improve genome annotations and analyze taxonomic coverage.

The paper presents a chromosome-level haplotype-resolved genome assembly for Italian ryegrass, revealing gene order collinearity and sequence variation between haplotypes, and identifies QTL for stem rust resistance.

The paper sequences and analyzes the genome of M. enterolobii, revealing a polyploid structure and transposable element abundance similar to other mitotic parthenogenetic Meloidogyne species.

The paper uses long-read sequencing to assemble complete genomes from low-complexity microbial communities, revealing strain diversity and active phage systems.

The paper demonstrates that complex prokaryotic genomes with long, near-identical repeats require very long reads and specialized assemblers for accurate de novo assembly.

The paper develops an integrative proteogenomics strategy to improve prokaryotic genome annotation by combining multiple resources and experimental data, identifying novel ORFs and correcting errors.