Aaron Darling, faculty member of University of Technology Sydney (who used to work with me here at UC Davis) has a very important and interesting read on his blog: Not so fast, FastTree. In it he discusses some informatics archaeology he did (digging around in some code) regading the program FastTree which many researchers have been using for the last few years. If you use FastTree or do any large scale phylogenetics, especially of microbes, this is worth a look.