How to root a phylogenetic tree when calculating phylogenetic diversity in plant community?
0
0
Entering edit mode
4.0 years ago
shadowstep • 0

I randomly draw some species (say 1, 2 and 4) from a 8 common species pool to assemble the communities, then transplant a special species X into the communities. Now I want to measure the effect of phylogenetic diversity of the communities, on the growth performance of species X.

Q1: I first estimated a phylo tree of the common species in communities, without species X, to calculate PD. In the R package picante, even if I used a unrooted tree, to calculate PD of a community with only one common species, the pd() function will return me a value (NOT 0), so what does this value mean? Does a community with only one species really have a phylogenetic diversity?

Q2:Otherwise, what criterion should I use to choose a correct root for a specific phylo tree?

Thanks for you help!

Phylogeny • 1.3k views
ADD COMMENT

Login before adding your answer.

Traffic: 859 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6