Trumpet is an operating system for simple and robust cell-free biocomputing

Judee A. Sharon, Chelsea Dasrath, Aiden Fujiwara, Alessandro Snyder, Mace Blank, Sam O’Brien, Lauren M. Aufdembrink, Aaron E. Engelhart, Katarzyna P. Adamala

Research output: Contribution to journalArticlepeer-review

1 Scopus citations

Abstract

Biological computation is becoming a viable and fast-growing alternative to traditional electronic computing. Here we present a biocomputing technology called Trumpet: Transcriptional RNA Universal Multi-Purpose GatE PlaTform. Trumpet combines the simplicity and robustness of the simplest in vitro biocomputing methods, adding signal amplification and programmability, while avoiding common shortcomings of live cell-based biocomputing solutions. We have demonstrated the use of Trumpet to build all universal Boolean logic gates. We have also built a web-based platform for designing Trumpet gates and created a primitive processor by networking several gates as a proof-of-principle for future development. The Trumpet offers a change of paradigm in biocomputing, providing an efficient and easily programmable biological logic gate operating system.

Original languageEnglish (US)
Article number2257
JournalNature communications
Volume14
Issue number1
DOIs
StatePublished - Dec 2023

Bibliographical note

Funding Information:
We sincerely thank John Berchmans and David Gonzalez for thoughtful early discussions about computing and comments on this manuscript. This work was supported by NSF award 1807461 (to K.P.A.), NSF award 1844313 (to K.P.A.), generous gift from Jeremy Wertheimer (to K.P.A.), Hackett Royalty Fund award (to K.P.A.), Alfred P. Sloan Foundation grant G-2022-19420 (to K.P.A.), the ARCS Foundation Scholarship (to J.S.), Scialog grant #28754 from Research Corporation for Science Advancement (to A.E.E.), grant #2021-3123 from the Heising-Simons Foundation (to A.E.E.), and NASA Contract 80NSSC18K1139 under the Center for Origin of Life (to A.E.E. and K.P.A.).

Publisher Copyright:
© 2023, The Author(s).

PubMed: MeSH publication types

  • Journal Article
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, Non-U.S. Gov't

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