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Phylogenetic Diversity Theory Sheds Light on the Structure of Microbial Communities

Figure 7

Increasing local community resolution reveals a diversity of clustered and overdispersed local samples.

We show a comparison of actual PD with expected PD for multiple habitats and subjects. The lefthand panel shows the PD of all habitats sampled from subject F1, with the solid line indicating the expected phylogenetic diversity of a random sample from a metacommunity comprising all reads taken from all subjects, and the dotted line representing an upper bound on the corresponding 95% confidence interval. The right hand panel shows the total branch length for all reads sampled from each subject (again including F1 in black), with solid and dotted lines as on the left hand-side. When local samples are grouped into a single community for each microbiome, all microbiome communities are consistent with clustered sampling. On the other hand, we observe a wide range of variation in habitat PD relative to random sampling.

Figure 7

doi: https://doi.org/10.1371/journal.pcbi.1002832.g007