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>