Fig. 3: Damped oscillations characterize the relaxation dynamics towards the new steady state.
The figure presents simulation predictions of the post-upshift dynamics of various state variables. A–D Time-dependent behavior of the relative translation elongation rate \(\epsilon /\tilde{\epsilon }\), the mass fraction of the ribosomal sector ϕR, the growth rate λ, and the ppGpp concentration G, respectively. E Post-shift dynamics of the ribosomal sector ϕR in relation to the amino acids pool ψA and the relative translation elongation rate \(\epsilon /\tilde{\epsilon }\), with circles representing simulation results color-coded by time from the shift. The X-shaped symbols denote the pre- and post-shift steady-state values and the dashed line represents the steady-state relationship between the two plotted variables. Similarly, F shows the post-shift dynamics of the ppGpp concentration G versus ψA and \(\tilde{\epsilon }/\epsilon -1\), a factor which is found proportional to ppGpp16. In this panel, we also show shift data from ref. 16 (blue reverse triangles). These plots show the presence of overshoots due to the damped oscillatory relaxation dynamics predicted by the model.
