Schweiger, O., Klotz, S., Durka, W. & Kühn, I. (2008) A comparative test of phylogenetic diversity indices. Oecologia, 157, 485-495.
From the prolific folks at UFZ in Germany, this is an interesting overview of all the methods that calculate phylogenetic diversity indices, along with their properties. For those who don't know these indices: PD indices work like a normal diversity index, but give stronger weight to taxa that are separated further in a phylogenetic tree.