Simone A. Evans

Coevolutionary mining of prokaryotic non-coding elements with a genome language model

Minerva extracts RNA base-pairing, protein-contact and repeat maps from a genome language model without alignments, flagging unannotated structured loci and a phage ncRNA array reverse-transcribed into short cDNAs.

Phage terminase recognition by the bacterial immune sensors Avs2 and Upx

This study determines the structural basis of phage terminase recognition by Avs2 and Upx, revealing distinct binding mechanisms despite structural differences.

Diverse bacterial pattern recognition receptors sense the core phage proteome

The paper identifies 90 structurally distinct STAND NTPase families in bacteria and archaea that recognize phage proteins, revealing their role in antiviral defense.

Proteolytic activation of diverse antiviral defense modules in prokaryotes

The paper identifies proteolytic activation mechanisms in prokaryotic antiviral defense modules and shows their functional diversity and convergence with stress responses.