Fig. 8: Engineering interception att orthogonality and memory kinetics.

a Recombination matrix for A118 attachment-site pairs with matched (along the diagonal) and mismatched (off-diagonal) central dinucleotides. Rows correspond to attB sites having the central dinucleotide listed at left, and columns correspond to attP sites having the central dinucleotide listed across the top. Each box displays GFP output for a deletion circuit having the corresponding attachment sites in the presence of constitutive A118 expression as shown at bottom. The relative expression level of GFP is shown inside each box. Controls for attachment site pairs with matched central dinucleotides and no A118 expression are shown to the right of the matrix. Scale bar reference for GFP output is scaled to each row’s maximum GFP value. b At left is shown a genetic schematic for a two-channel deletion circuit containing two fluorescent outputs (mKate and GFP). Below assay data is shown for this two-output circuit co-transformed with a constitutive I⁺_KSL and E⁺_HQN expression plasmid and a constitutive A118-expression plasmid under the four different INPUT conditions shown at bottom (see “Methods“, “Two-output circuit assay” for details). c Kinetic assay data over 3 days is shown for the type-I memory circuit shown in Fig. 1f. On the plot at left, boxed in gray, is control data for cells containing only the GFP reporter plasmid (Reporter Control). The center three bars represent the circuit with no inducer (cellobiose) added and correspond to A118 transcription being repressed over 3 days. The three bars at right represent the circuit with inducer added and correspond to A118 transcription being on for 3 days. d At right, kinetic assay data over 3 days is shown for type-II (interception) memory shown below, with the same inducer conditions described in (c) (see “Methods”, “Recombinase 3-day kinetic assays” for more information). Note: The icon for the recombinase is given as a monomer. Source data are provided as a Source Data file. Data in (a–d) represent the average of n = 6 biological replicates. Error bars correspond to the SEM of these measurements.