CRISPR-Cas immunity is a unique and powerful tool for reconstructing the history of host-microbe interactions in natural populations. In addition, ongoing collaborative work between the Pascual and Whitaker labs has shown that CRISPR interactions with viruses establish regimes of stable host diversification punctuated by viral epidemics in simulations. However, despite the popularity of CRISPRs as a genetic tool, very few studies explore CRISPR dynamics in natural populations over time and space. Irene Newton, Rachel Whitaker, and Adam Dolezal along with GEMS trainee Carrie Ganote aim to establish a system to track CRISPR dynamics and study their impact on nested symbiont evolution by isolating and analyzing populations of coexisting Bombella genomes sampled from bee larvae.