Fig 4.
Simulations results showing the approach to four possible long-term outcomes: (A) Extinction (rS = 0.01, rD = 0.1, rL = 0.2). (B) Domestication (rS = 0.52, rD = 0.01, rL = 0.2). (C) Parasitism (rS = 0.02, rD = 0.1, rL = 2.0). (D) Persistence (rS = 1.5, rD = 0.05, rL = 1.5). In all cases, rI = 1, rT = 0, nB = 1, nE = 1 and nR = 8. The average number of genes of each type, per prophage, is plotted against time, for 20 randomly chosen replicate simulations (colored lines) and for the mean across 100 replicate simulations (black lines). For each replicate, a population of 10,000 bacterial genomes was simulated for 20,000 bacterial generations, over which time each of these long-term outcomes remained stable; here we illustrate the initial approach to these long-term states.