Lauren Petrullo, Tiantian Ren, Martin Wu, Rudy Boonstra, Rupert Palme, Stan Boutin, Andrew G. McAdam, Ben Dantzer

Gut microbiome diversity plays an important role in host health and fitness, in part through the diversification of gut metabolic function and pathogen protection. Elevations in glucocorticoids (GCs) appear to reduce gut microbiome diversity in experimental studies, suggesting that a loss of microbial diversity may be a negative consequence of increased GCs. However, given that ecological factors like food availability and population density may independently influence both GCs and microbial diversity, understanding how these factors structure the GC-microbiome relationship is crucial to interpreting its significance in wild populations. Here, we used an ecological framework to investigate the relationship between GCs and gut microbiome diversity in wild North American red squirrels (Tamiasciurus hudsonicus). We found that higher GCs predicted lower gut microbiome diversity and an increase in metabolic taxa. In addition, we identified a loss of potentially pathogenic bacteria with increasing GCs. Both dietary heterogeneity and an upcoming masting event exhibited direct effects on gut microbiome diversity, whereas conspecific density and host reproductive activity impacted diversity indirectly via changes in GCs. Together, our results suggest that GCs coordinate the effects of ecological change and host biology on gut microbiome diversity, and highlight the importance of situating the GC-microbiome relationship within an ecological framework.