Next-generation sequencing technologies have been a boon to many areas of biological research, including de novo genome sequencing and characterization of bacterial communities. However, approaches useful for phylogenetics have lagged somewhat in their development. In Rubin et al. 2012, I explored the usefulness of restriction-site associated DNA sequencing for reconstructing phylogenetic trees. The approach was successful on simulated data from the Drosophila genomes and has now been implemented in a number of other studies, including Wagner et al. 2013 and Eaton and Ree 2013.