Bernard Y. Kim

The paper investigates anti-parasitoid immune mechanisms in Drosophilidae, finding that horizontal gene transfer of CdtB is more prevalent than melanotic encapsulation in some clades.

The paper identifies non-B DNA structures as the cause of sequencing bias against simple satellite DNA in long-read sequencing and suggests solutions to mitigate this bias.

The paper reconstructs the demographic history of Rice's whale using whole-genome sequences and assesses its genomic health, finding long-term isolation and a recent population collapse increase extinction risk.

The paper annotates protein-coding genes in 301 Drosophilidae species and analyzes evolutionary patterns in gene number and codon usage.

FlyCADD predicts the functional impact of single nucleotide variants in Drosophila melanogaster using genomic features to prioritize variants for functional studies.

The paper shows ultra-long long-read sequencing is needed for accurate structural variant calling in Drosophila melanogaster.

The paper identifies sequencing bias in Nanopore and PacBio that prevents assembly of Y-linked genes in Drosophila melanogaster, highlighting issues with read initiation, elongation, and base-calling near satellite sequences.

This study shows Aedes sierrensis has heritable genetic variation in heat tolerance that could allow it to adapt to warming faster than projected climate changes.

This study uses genome editing in Drosophila to trace the evolution of horizontally transferred immune toxins, showing fusionB enhances survival and suppresses parasitoid wasp development.

The paper compares the distribution of fitness effects of new amino acid changing mutations between dogs and wolves to assess the impact of domestication on selective pressures.

The paper identifies a genetic basis for a sexual mimicry polymorphism in swordtail fish and links it to behavioral interactions that may maintain the polymorphism.

The paper presents 183 new genome assemblies for 179 drosophilid species using single-fly long-read sequencing, improving phylogenomic coverage and enabling a well-resolved multi-locus phylogeny.

The paper presents an improved chromosome-scale genome assembly for the African spiny mouse using long Nanopore reads and validates it with RNA-seq data.

The paper identifies extrachromosomal DNA enriched with var genes in Plasmodium falciparum, suggesting a mechanism for rapid antigenic diversification.

The paper evaluates how GERP scores relate to purifying selection and functional turnover across mammalian evolution, finding that 4.51% of noncoding human genome is under purifying selection with significant selection coefficient changes.