Ancestral outdegree and binding site conservation of conserved TFs.

At the time of WGD all TFs were identified and their outdegree and binding site motifs recorded. At 1000 generation intervals conserved TFs from the time of WGD or, if there was no WGD, from the time point when environmental change was applied for the re-adaptation experiments, were identified in the genomes in the line of descent. (A) The average ancestral outdegree of the retained TFs (recorded at the reference time point) was divided by the average outdegree of the all ancestral TFs, thus providing a measure of the influence of ancestral connectivity on the rate of conservation of TFs. For WGD lineages this relative outdegree of conserved TFs was measured separately for ohnologs (red) and singles (yellow). For comparison, the analysis was also done for non-WGD (cyan) lineages and a neutrally evolving control set (gray). (B) The current and ancestral binding sequences of the TFs were compared and conservation score set to 1 if they remained the same and 0 otherwise and all scores averaged per individual.