Engineering combinatorial and dynamic decoders using synthetic immediate-early genes. Author Pavithran Ravindran, Maxwell Wilson, Siddhartha Jena, Jared Toettcher Publication Year 2020 Type Journal Article Abstract Many cell- and tissue-level functions are coordinated by intracellular signaling pathways that trigger the expression of context-specific target genes. Yet the input-output relationships that link pathways to the genes they activate are incompletely understood. Mapping the pathway-decoding logic of natural target genes could also provide a basis for engineering novel signal-decoding circuits. Here we report the construction of synthetic immediate-early genes (SynIEGs), target genes of Erk signaling that implement complex, user-defined regulation and can be monitored by using live-cell biosensors to track their transcription and translation. We demonstrate the power of this approach by confirming Erk duration-sensing by FOS, elucidating how the BTG2 gene is differentially regulated by external stimuli, and designing a synthetic immediate-early gene that selectively responds to the combination of growth factor and DNA damage stimuli. SynIEGs pave the way toward engineering molecular circuits that decode signaling dynamics and combinations across a broad range of cellular contexts. Keywords Animals, Mice, Transcription, Genetic, Signal Transduction, Gene Expression Regulation, Kinetics, Genetic Engineering, NIH 3T3 Cells, DNA Damage, Extracellular Signal-Regulated MAP Kinases, Genes, Immediate-Early, Genes, Synthetic, Mitogens, Proto-Oncogene Proteins c-fos Journal Commun Biol Volume 3 Issue 1 Pages 436 Date Published 2020 Aug 13 ISSN Number 2399-3642 DOI 10.1038/s42003-020-01171-1 Alternate Journal Commun Biol PMCID PMC7426417 PMID 32792645 PubMedPubMed CentralGoogle ScholarBibTeXEndNote X3 XML