The dynamics of Helicobacter pylori colonization from its acquisition throu
gh the development of steady-state are examined through a mathematical mode
l that includes the host response. The model encompasses both host and micr
obiological variation. The individual capacity of the host response is show
n to be a key model parameter, leading to either transient or persistent co
lonization, whereas the growth rate of that response has little effect. Ana
lyses of competing strains indicate that each must occupy a specific niche,
otherwise exclusion occurs. The model implies that there exists a lower bo
und on the host response to the indigenous microflora that is consistent wi
th current biological views of H. pylori. Parallel models may be useful in
understanding other persistent host-microbial interactions.