Derek M. Bickhart

The paper presents a reference genome assembly for hairy vetch (Vicia villosa) to aid in genetic improvement and genome evolution studies.

The paper constructs structural variant-based pangenomes from haplotype-resolved bovine assemblies and identifies variants potentially affecting phenotype.

This paper presents a high-quality long-read genome assembly of red clover, significantly improving contig count, quality, and accuracy compared to short-read assemblies.

The paper identifies a frameshift mutation in IFT80 causing embryonic lethality in Holstein cattle and validates it using CRISPR-Cas9 knockout embryos.

The paper develops a platform using proximity-ligation sequencing to reconstruct viral genomes and assign hosts from metagenomic data, showing high accuracy and efficiency.

metaFlye improves metagenome assembly using long-read sequencing, producing more contiguous and accurate assemblies with better reconstruction of 16S RNA genes and novel plasmids/viruses.

The paper presents improved pig reference genomes using long-read sequencing, enhancing continuity and accuracy for pig genetics and genomics research.

This study uses trio binning to assemble chromosome-length haplotigs for yak and cattle from an F1 hybrid, achieving high continuity and phasing accuracy.

The paper presents haplotype-resolved cattle genomes to identify structural variants and adaptation traits, finding expanded immune-related gene families and a fatty acid desaturase copy under positive selection in indicine cattle.

This paper introduces trio binning, a method for assembling haplotypes from heterozygous genomes using parental short reads, achieving high accuracy in diploid reconstruction.

The paper develops a scaffolding method using Hi-C data to improve long read genome assembly contiguity and demonstrates its accuracy on two organisms.