Engineering combinatorial and dynamic decoders using synthetic immediate-early genes

Commun Biol. 2020 Aug 13;3(1):436. doi: 10.1038/s42003-020-01171-1.

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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • DNA Damage
  • Extracellular Signal-Regulated MAP Kinases / metabolism
  • Gene Expression Regulation / drug effects
  • Genes, Immediate-Early*
  • Genes, Synthetic*
  • Genetic Engineering*
  • Kinetics
  • Mice
  • Mitogens / pharmacology
  • NIH 3T3 Cells
  • Proto-Oncogene Proteins c-fos / metabolism
  • Signal Transduction
  • Transcription, Genetic / drug effects

Substances

  • Mitogens
  • Proto-Oncogene Proteins c-fos
  • Extracellular Signal-Regulated MAP Kinases