Data from: When outgroups fail; phylogenomics of rooting the emerging pathogen, Coxiella burnetii

Talima Pearson, Heidie M. Hornstra, Jason W. Sahl, Sarah Schaack, James M. Schupp, Stephen M. Beckstrom-Sternberg, Matthew W. O'Neill, Rachael A. Priestley, Mia D. Champion, James S. Beckstrom-Sternberg, Gilbert J. Kersh, James E. Samuel, Robert F. Massung & Paul Keim
Rooting phylogenies is critical for understanding evolution, yet the importance, intricacies and difficulties of rooting are often overlooked. For rooting, polymorphic characters among the group of interest (ingroup) must be compared to those of a relative (outgroup) that diverged before the last common ancestor (LCA) of the ingroup. Problems arise if an outgroup does not exist, is unknown, or is so distant that few characters are shared, in which case duplicated genes originating before the...
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