Two dynamic regimes in the human gut microbiome
Fig 4
Alpha diversity is correlated with conditionally rare taxa (CRT) blooms.
Black lines show the Shannon effective number of species (i.e. Neff, a measure of alpha diversity) for each time series used in this analysis. The red dashed lines show the average Neff for each time series. The average Neff is between 28–51 across the time series, which is high enough that compositional effects are expected to be negligible (Freidman and Alm, 2012). Major perturbations in alpha diversity are associated with CRT blooms (orange lines = sum of CRT abundances).