Effects of passage history and sampling bias on phylogenetic reconstruction of human influenza A evolution.

@article{Bush2000EffectsOP,
  title={Effects of passage history and sampling bias on phylogenetic reconstruction of human influenza A evolution.},
  author={Robin M. Bush and Catherine Bender Smith and Nancy J. Cox and W. M. Fitch},
  journal={Proceedings of the National Academy of Sciences of the United States of America},
  year={2000},
  volume={97 13},
  pages={6974-80}
}
In this paper we determine the extent to which host-mediated mutations and a known sampling bias affect evolutionary studies of human influenza A. Previous phylogenetic reconstruction of influenza A (H3N2) evolution using the hemagglutinin gene revealed an excess of nonsilent substitutions assigned to the terminal branches of the tree. We investigate two hypotheses to explain this observation. The first hypothesis is that the excess reflects mutations that were either not present or were at low… CONTINUE READING