A Forward-Genetic Screen and Dynamic Analysis of Lambda Phage Host-Dependencies Reveals an Extensive Interaction Network and a New Anti-Viral Strategy
Figure 6
Numerical simulations of E. coli growth during phage lambda infection.
(A) Schematic of the mathematical model, where the boxes represent the amounts of uninfected ([E]) and lysogenically-infected ([E*]) E. coli as well as phage ([l]). The arrows indicate the effects of one variable on the others, and are labeled with the relevant parameters. A detailed description of the model is given in Materials and Methods. (B) Simulated infection time courses where the model parameters were varied (inset) to produce trajectories that closely resembled the data shown in Figure 3B. (C) Clustergram of simulated time course derivatives for a variety of parameter combinations. 125 simulations were generated using the model (combinations of five possible values for each key parameter, see Figure S3 and Figure S4). Of these, the derivatives of all of the simulation time courses with low infectivity were clustered (middle), using the same technique as with the experimental data shown in Figure 4. Additionally, six of the simulations that exhibited no infectivity, and four of the simulations that exhibited high infectivity are shown at top and bottom as representative examples. Similar to Figure 4, a dendrogram is shown at left, and cluster indicators and growth curves representing the average behavior of each cluster are shown at right. At right and proximal to the clustergram are columns indicating the relative values of model parameters f, b and ki, as well as the product of ki and b, adjusted for display on the same color mapping by standard gamma correction of value shown.