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bioRxiv · 10.1101/2025.09.03.673985

RNA-based communication in heterogeneous populations of cell mimics

Lehr, F.-X.·Banlaki, I.·Bumueller, E.·Mercier, T.·Niederholtmeyer, H.
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Abstract

RNA regulators offer a promising path for building complex, orthogonal circuits due to their low resource demands and design flexibility. In this study we explore their potential as signaling molecules in communication between synthetic cells. Specifically, we engineer populations of heterogenetic porous polymer cell mimics to produce, emit and receive two types of small synthetic RNA regulators. These RNAs are required to activate reporter expression at both the levels of transcription and translation. We distribute this AND gate circuit in receiver and two types of sender cell mimics to compare the distributed logic computation to the behavior of the circuit in well-mixed, bulk cell-free expression reactions. Analyzing different densities and spatial arrangements of senders and receivers, we reveal spatiotemporal gradients in RNA signals and identify configurations that increase specific activation. With small regulatory RNAs, the engineering toolbox for communication between synthetic cells expands to include a programmable class of signaling molecules. The rapid turnover of RNA suggests applications in establishing dynamic signaling gradients in communities of synthetic cells. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=110 SRC="FIGDIR/small/673985v2_ufig1.gif" ALT="Figure 1"> View larger version (27K): org.highwire.dtl.DTLVardef@3892b3org.highwire.dtl.DTLVardef@2751feorg.highwire.dtl.DTLVardef@1780922org.highwire.dtl.DTLVardef@19fc511_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Lehr, F.-X., Banlaki, I., Bumueller, E., Mercier, T., Niederholtmeyer, H.. 2025-09-04. RNA-based communication in heterogeneous populations of cell mimics. https://doi.org/10.1101/2025.09.03.673985

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