Fig. 3: Parametric characterization of endogenous regulatory elements capable of responding to aromatic compounds.
From: Lignin valorization to bioplastics with an aromatic hub metabolite-based autoregulation system
a Schematic diagram showing the location of regulatory elements and associated genes in the genome of R. eutropha H16. The pink color shows the regulatory elements and functional genes related to benzoate metabolism. Regulatory elements and functional genes related to phenol metabolism are displayed in blue. Regulatory elements and functional genes of salicylic acid metabolism are indicated in yellow. Cyan indicates elements and genes that regulate GEA ring-opening metabolism. Green indicates regulatory elements and functional genes for the conversion of 4-HBA to PCA. Purple indicates the elements and functional genes involved in regulating PCA metabolism. b Sensitivity and persistence of different regulatory elements in response to target substrates. The corresponding inducers were added for the six regulatory elements, and samples were taken every one hour to analyse the changes in the transcription level of the reporter gene. c Analysis of the regulatory strength of different regulatory elements. The light color indicates the expression level in the control without added ligand, and the dark color indicates the change in the expression level change after adding ligand for 2 h relative to that without added ligand. The inducers used were arabinose, BA, 2-HBA, 4-HBA, GEA, and PCA, respectively. The data are the mean ± SD, n = 4 biological samples, ***p ≤ 0.001, unpaired two-tailed t test. d Orthogonal analysis of the responses of regulatory elements to different aromatic compounds. The heatmap illustrates the change in reporter gene expression in the presence of ligand relative to that with no ligand added. Measurements were performed 2 h after the addition of 10 mM corresponding ligand. BA benzoate, PHL phenol, 2-HBA salicylic acid, 4-HBA 4-hydroxybenzoic acid, GEA gentisic acid, PCA protocatechuic acid, 3-HBA 3-hydroxybenzoic acid, VA vanillic acid, p-CA p-coumarate, CAF caffeic acid, SA syringic acid, GAA gallic acid, FA ferulic acid. Source data are provided as a Source Data file.
