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Fig. 6 | BMC Evolutionary Biology

Fig. 6

From: Expression and regulatory asymmetry of retained Arabidopsis thaliana transcription factor genes derived from whole genome duplication

Fig. 6

ODE models of TF WGD-duplicate expression and cis-regulatory site evolution relative to the ancestral state. a In this model, we consider the transition of WGD-duplicate pair expression states between three possible scenarios (O = both retained, I = one retained, II = neither retained) using four variables representing the rate of transition between state (x,y,w,z). b Left and middle: results for the one parameter (x = y = w = z) and two parameter (x = y|w = z) versions of the expression state model showing the change in time (x-axis) and the frequency (y-axis) of each scenario. Curves represent the continuous output of the model in different scenarios. The significance of including additional parameters (the p-value between the curly brackets) was determined using the likelihood ratio test. Right: A bar graph of the parameter values for the one (orange) and two (green) parameter versions of the expression ODE model. c Left three sub-graphs: results for the one-parameter (x = y = w = z), two-parameter (x = y|w = z), and four-parameter (x|y|w|z) versions of the cis-regulatory site model showing the change in time (x-axis) and the frequency (y-axis) of each WGD-duplicate-pair scenario. Curves represent the continuous output of the model in different scenarios. The p-values are derived from the likelihood ratio tests between models. Far right: a bar graph of the parameter values (x,y,w,z) for the one (orange), two (green), and four (blue) parameter versions for the cis-regulatory site ODE model

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