The evolution of antibiotic resistance in bacteria is well known. Here I de
scribe possible mechanisms by which an increased rate of re-colonization of
vertebrate guts by microbes caused by antibiotic use could lead to selecti
on for increased virulence in currently mutualistic or benign microbes. The
importance of understanding both the source and the frequency of colonizat
ion in such mutualisms is stressed and the possible importance of pseudo-ve
rtical transmission in the evolution of these systems is discussed. A numbe
r of areas requiring experimental investigation are identified.