Rolling circle amplification of synthetic DNA accelerates biocatalytic determination of enzyme activity relative to conventional methods

Sci Rep. 2020 Jun 24;10(1):10279. doi: 10.1038/s41598-020-67307-9.

Abstract

The ability to quickly and easily assess the activity of large collections of enzymes for a desired substrate holds great promise in the field of biocatalysis. Cell-free synthesis, although not practically amenable for large-scale enzyme production, provides a way to accelerate the timeline for screening enzyme candidates using small-scale reactions. However, because cell-free enzyme synthesis requires a considerable amount of template DNA, the preparation of high-quality DNA "parts" in large quantities represents a costly and rate-limiting prerequisite for high throughput screening. Based on time-cost analysis and comparative activity data, a cell-free workflow using synthetic DNA minicircles and rolling circle amplification enables comparable biocatalytic activity to cell-based workflows in almost half the time. We demonstrate this capability using a panel of sequences from the carbon-nitrogen hydrolase superfamily that represent possible green catalysts for synthesizing small molecules with less waste compared to traditional industrial chemistry. This method provides a new alternative to more cumbersome plasmid- or PCR-based protein expression workflows and should be amenable to automation for accelerating enzyme screening in industrial applications.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biocatalysis
  • Biotechnology / methods*
  • Cell-Free System / enzymology
  • DNA, Circular / chemical synthesis*
  • Hydrolases / biosynthesis*
  • Hydrolases / genetics
  • Nucleic Acid Amplification Techniques / methods*
  • Workflow

Substances

  • DNA, Circular
  • Hydrolases