Infection by the human pathogen Legionella pneumophila relies on the translocation of∼
300 virulence proteins, termed effectors, which manipulate host cell processes. However …

Horizontal gene transfer (HGT) is one of the most important processes in prokaryote
evolution. The sharing of DNA can spread neutral or beneficial genes, as well as genetic …

Pangenomes exhibit remarkable variability in many prokaryotic species, much of which is
maintained through the processes of horizontal gene transfer and gene loss. Repeated …

The evolution and structure of prokaryotic genomes are largely shaped by horizontal gene
transfer. This process is so prevalent that DNA can be seen as a public good—a resource …

The accessory genes of prokaryote and eukaryote pangenomes accumulate by horizontal
gene transfer, differential gene loss, and the effects of selection and drift. We have …

Bacterial genomes exhibit widespread horizontal gene transfer, resulting in highly variable
genome content that complicates the inference of genetic interactions. In this study, we …

Organismal traits can evolve in a coordinated way, with correlated patterns of gains and
losses reflecting important evolutionary associations. Discovering these associations can …

Along protein sequences, co-evolution analysis identifies residue pairs demonstrating either
a specific co-adaptation, where changes in one of the residues are compensated by …

Interacting proteins and protein domains coevolve on multiple scales, from their correlated
presence across species, to correlations in amino-acid usage. Genomic databases provide …

Methylcytosine (5mC) and DNA methyltransferases (DNMTs) are broadly conserved in
eukaryotes but are also frequently lost during evolution. The mammalian SNF2 family …