Abstract
Microbial populations have an enormous capacity for rapid evolutionary change. Some mutations increase the fitness of their lineage and compete with each other in a process known as clonal interference. Other mutations can evade competitive exclusion by diversifying into distinct ecological niches. Both processes are frequently observed in natural and experimental settings, yet little is known about how they interact in the parameter regimes most relevant for microbes. Here we address this gap by analyzing the dynamics of ecological diversification in a simple class of resource competition models, where individuals acquire mutations that alter their resource uptake rates. We focus on large adapting populations, where mutations occur so frequently that their ecological and evolutionary timescales overlap. In this regime, we show that the competition between linked mutations causes the population to self-organize into a smaller number of distinct ecotypes, driven by an emergent priority effect that favors the resident strains. We demonstrate that these priority effects bias the long-term metabolic structure of the population, producing qualitative departures from existing ecological theory. We argue that similar dynamics should arise for other rapidly evolving ecosystems, where adaptive mutations accumulate at many linked genetic loci.