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(A) Architecture of the recombinase-based memory switch. The input module (pSwitch) contains IPTG- and arabinose-inducible promoters driving the expression of HbiF and FimE, respectively. The output module (pReporter) contains recombinase recognition sites flanking a constitutive promoter (Ptrc*) controlling RFP and GFP expression. Site-specific <t>DNA</t> inversion between the inverted repeats (IRL/IRR) reconfigures the recombination sites, reversing the promoter orientation and thereby toggling expression between RFP and GFP . (B) Flow cytometry analysis of cells initialized in the Green-On state and analyzed on day 3. The percentages of Red, uncommitted, and Green cells are reported as indicated. Red circles indicate the effect of recombinase leakiness and non-orthogonality. (C) Flow cytometry analysis of cells initialized in the Green-On state and switched to the Red-On state on day 3. (D) Flow cytometry analysis of cells initialized in the Red-On state and analyzed on day 3. (E) Flow cytometry analysis of cells initialized in the Red-On state and switched to the Green-On state on day 3.
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(A) Architecture of the recombinase-based memory switch. The input module (pSwitch) contains IPTG- and arabinose-inducible promoters driving the expression of HbiF and FimE, respectively. The output module (pReporter) contains recombinase recognition sites flanking a constitutive promoter (Ptrc*) controlling RFP and GFP expression. Site-specific <t>DNA</t> inversion between the inverted repeats (IRL/IRR) reconfigures the recombination sites, reversing the promoter orientation and thereby toggling expression between RFP and GFP . (B) Flow cytometry analysis of cells initialized in the Green-On state and analyzed on day 3. The percentages of Red, uncommitted, and Green cells are reported as indicated. Red circles indicate the effect of recombinase leakiness and non-orthogonality. (C) Flow cytometry analysis of cells initialized in the Green-On state and switched to the Red-On state on day 3. (D) Flow cytometry analysis of cells initialized in the Red-On state and analyzed on day 3. (E) Flow cytometry analysis of cells initialized in the Red-On state and switched to the Green-On state on day 3.
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(A) Architecture of the recombinase-based memory switch. The input module (pSwitch) contains IPTG- and arabinose-inducible promoters driving the expression of HbiF and FimE, respectively. The output module (pReporter) contains recombinase recognition sites flanking a constitutive promoter (Ptrc*) controlling RFP and GFP expression. Site-specific DNA inversion between the inverted repeats (IRL/IRR) reconfigures the recombination sites, reversing the promoter orientation and thereby toggling expression between RFP and GFP . (B) Flow cytometry analysis of cells initialized in the Green-On state and analyzed on day 3. The percentages of Red, uncommitted, and Green cells are reported as indicated. Red circles indicate the effect of recombinase leakiness and non-orthogonality. (C) Flow cytometry analysis of cells initialized in the Green-On state and switched to the Red-On state on day 3. (D) Flow cytometry analysis of cells initialized in the Red-On state and analyzed on day 3. (E) Flow cytometry analysis of cells initialized in the Red-On state and switched to the Green-On state on day 3.

Journal: bioRxiv

Article Title: Engineering Persistent and Rewritable Genetic Memory in Bacteria through Multiscale Plasmid Competition

doi: 10.64898/2026.09.18.752696

Figure Lengend Snippet: (A) Architecture of the recombinase-based memory switch. The input module (pSwitch) contains IPTG- and arabinose-inducible promoters driving the expression of HbiF and FimE, respectively. The output module (pReporter) contains recombinase recognition sites flanking a constitutive promoter (Ptrc*) controlling RFP and GFP expression. Site-specific DNA inversion between the inverted repeats (IRL/IRR) reconfigures the recombination sites, reversing the promoter orientation and thereby toggling expression between RFP and GFP . (B) Flow cytometry analysis of cells initialized in the Green-On state and analyzed on day 3. The percentages of Red, uncommitted, and Green cells are reported as indicated. Red circles indicate the effect of recombinase leakiness and non-orthogonality. (C) Flow cytometry analysis of cells initialized in the Green-On state and switched to the Red-On state on day 3. (D) Flow cytometry analysis of cells initialized in the Red-On state and analyzed on day 3. (E) Flow cytometry analysis of cells initialized in the Red-On state and switched to the Green-On state on day 3.

Article Snippet: DNA sequencing used Plasmidsaurus DNA whole plasmid sequencing service.

Techniques: Expressing, Flow Cytometry, Analysis