Fig. 4: Evaluation of DeepCROSS-generated cross-species and species-preferred RSs. | Nature Communications

Fig. 4: Evaluation of DeepCROSS-generated cross-species and species-preferred RSs.

From: Systematic representation and optimization enable the inverse design of cross-species regulatory sequences in bacteria

Fig. 4: Evaluation of DeepCROSS-generated cross-species and species-preferred RSs.The alt text for this image may have been generated using AI.

a The natural RSs’ activities and the optimized RSs’ activities were scored by the prediction model in an cross-species RS design situation (EC and PA are short for E. coli and P. aeruginosa respectively). b The natural RSs’ activities and the optimized RSs’ activities were scored by the prediction model in the P. aeruginosa-preferred RS design situations. c The natural RSs’ activities and the optimized RSs’ activities were scored by the prediction model in E. coli-preferred RS design situations. Box plots depict the median (center line), interquartile range (box limits), whiskers (1.5×IQR), and outliers (points beyond whiskers). n = 2000 per group in a–c and n represents the number of RSs. d The relative activity of optimized cross-species and control 5’ RSs measured by sfGFP (BBa_J23119 as the control sequence). e The relative activity of optimized P. aeruginosa-preferred and control 5’ RSs. f The relative activity of optimized E. coli-preferred and control 5’ RSs. Bar height represents the mean of n = 3 biological replicates per group in d to f, with black dots indicating individual experiment results. Source data are provided as a Source Data file.

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