10.1371/journal.ppat.1007857.g001 Joseph T. Hicks Joseph T. Hicks Dong-Hun Lee Dong-Hun Lee Venkata R. Duvvuri Venkata R. Duvvuri Mia Kim Torchetti Mia Kim Torchetti David E. Swayne David E. Swayne Justin Bahl Justin Bahl Evolutionary history of HPAI H5N2 isolated from commercial poultry premises, 2015. Public Library of Science 2020 transition influenza H 5N outbreak H 5NX outbreak genome HPAI H 5N sequences factor turkey production premises North American 2015 poultry industries Epidemiological compartmental models Discrete trait diffusion models 2020-01-21 18:34:32 Figure https://plos.figshare.com/articles/figure/Evolutionary_history_of_HPAI_H5N2_isolated_from_commercial_poultry_premises_2015_/11675568 <p>(A) Bayes factor (BF) tests between molecular clock and coalescent evolutionary models. For each coalescent model (exponential growth [Expo] and extended Bayesian skyline plot [EBSP]), BF was calculated using the constant coalescent model as reference (Const, indicated with asterisk) under the same molecular clock model. Two horizontal gray reference lines denote log(BF) = 1 and log(BF) = 5, which represent support and very strong support, respectively, for improved fit over the reference. (B) Molecular clock rate (substitutions per site per year) comparison between molecular clock and coalescent evolutionary models. (C) The estimated time of the most recent common ancestor (TMRCA; decimal year) compared between molecular clock and coalescent evolutionary models. (D) Maximum clade credibility tree representing the ancestral reconstruction of poultry industry (layer chicken vs. turkey) across the evolutionary history of the outbreak. The ancestral reconstruction assumed an EBSP coalescent and strict molecular clock evolutionary model. Tree branches are colored based on the most probable poultry industry of the descendant node. Thin gray node bars represent the 95% highest posterior density (HPD) of the node height (i.e., the time at which that ancestor is estimated to have existed).</p>