We found that our algorithm outperforms Maximum Likelihood based quartet puzzling on data sets simulated with low to medium evolutionary rates.
Each panel corresponds to one selection experiment with the title indicating on which population an extra round of selection was performed, that is, a population either from the third or fifth round of the evolutionary run for medium expression, and what fraction of the population was selected.
10.7554/eLife.05856.025 Appendix 2 figure 3. Contour plot of the inferred fitness function (76) as a function of mean expression μ (horizontal axis) and excess noise (vertical axis), that acts on the population from rounds 3 through 5 of the evolutionary runs for medium expression.
(B ) Changes in the fluorescence distribution for one evolutionary run selecting for medium target expression (top) and one evolutionary run selecting for high target expression (bottom).
The concentration of salts, trace elements and vitamins were exactly the same as used in the medium for evolutionary engineering in shake flasks.
In contrast, in the evolutionary runs selecting for medium expression, the selection window is essentially constant from round three through round five.
In vertebrates, the design of the BGB is governed by many factors, including evolutionary status, gas exchange medium, and level of physiological activity.
In addition, the decrease in specific xylose consumption rates of evolved strains has highlighted the consequence of the choice of medium for evolutionary engineering.
Subsequent EMS mutagenesis, genome shuffling and selection in D-xylose-enriched D-xylose-enriched D-xylose-enrichedd by mulignocelluloseof evolutionary engineering in complex medium withydrolysate gradually established efollowed D-xylose fermentation.
