The recent increase in genomic data is revealing an unexpected perspective of gene loss as
a pervasive source of genetic variation that can cause adaptive phenotypic diversity. This …

Many groups of closely related species have reticulate phylogenies. Recent genomic
analyses are showing this in many insects and vertebrates, as well as in microbes and …

Animal genomes show networks of deeply conserved gene linkages whose phylogenetic
scope and chromosomal context remain unclear. Here, we report chromosome-scale …

The SIFT (sorting intolerant from tolerant) algorithm helps bridge the gap between mutations
and phenotypic variations by predicting whether an amino acid substitution is deleterious …

Phylosymbiosis was recently proposed to describe the eco-evolutionary pattern, whereby
the ecological relatedness of host-associated microbial communities parallels the phylogeny …

We used 20 de novo genome assemblies to probe the speciation history and architecture of
gene flow in rapidly radiating Heliconius butterflies. Our tests to distinguish incomplete …

The Drosophila melanogaster Genetic Reference Panel (DGRP) is a community resource of
205 sequenced inbred lines, derived to improve our understanding of the effects of naturally …

Over 100 years of studies in Drosophila melanogaster and related species in the genus
Drosophila have facilitated key discoveries in genetics, genomics, and evolution. While high …

The vast scale of SARS-CoV-2 sequencing data has made it increasingly challenging to
comprehensively analyze all available data using existing tools and file formats. To address …

Current sequencing methods produce large amounts of data, but genome assemblies
constructed from these data are often fragmented and incomplete. Incomplete and error …