Fig. 3: Computer-aided design of tRNA abundances enables a broad dynamic range of specifiable translation elongation rates.
From: Engineering tRNA abundances for synthetic cellular systems
A Iterative selection of tRNA abundance distributions by CD-CAD enables either faster (blue) or slower (red) elongation compared to the initially random population that seeds the genetic algorithm (gray). Each distribution represents the expected average transcriptome-wide elongation latencies among individual tRNA distributions competing in the genetic algorithm (Methods); average elongation latencies computed with the wild-type tRNA distribution (green dashed line) and the uniform tRNA distribution (black dashed line). B tRNA abundance distributions produced by CD-CAD that enable the fastest or slowest elongation compared to wild-type E. coli (color bar, percentages). C The fraction of cognate tRNA per codon (each codon represented by its relative usage in the transcriptome) for the tRNA distribution that enables the fastest elongation. D Per-transcript elongation latency distribution for the tRNA abundance distribution that enables the fastest elongation (green) vs. the wild-type abundance distribution (purple). E, F Same as (C, D) but for the tRNA abundance distribution produced by CD-CAD that enables the slowest elongation (red). Source data are provided via a Zenodo repository (https://doi.org/10.5281/zenodo.7953836).
