IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v15y2024i1d10.1038_s41467-024-45759-1.html
   My bibliography  Save this article

A hybrid transistor with transcriptionally controlled computation and plasticity

Author

Listed:
  • Yang Gao

    (University of Texas at Austin)

  • Yuchen Zhou

    (University of Texas at Austin
    University of Texas at Austin)

  • Xudong Ji

    (Northwestern University
    Northwestern University)

  • Austin J. Graham

    (University of Texas at Austin
    University of California San Francisco)

  • Christopher M. Dundas

    (University of Texas at Austin
    Stanford University)

  • Ismar E. Miniel Mahfoud

    (University of Texas at Austin)

  • Bailey M. Tibbett

    (University of Texas at Austin)

  • Benjamin Tan

    (University of Texas at Austin
    University of Texas at Austin)

  • Gina Partipilo

    (University of Texas at Austin)

  • Ananth Dodabalapur

    (University of Texas at Austin
    University of Texas at Austin)

  • Jonathan Rivnay

    (Northwestern University
    Northwestern University)

  • Benjamin K. Keitz

    (University of Texas at Austin)

Abstract

Organic electrochemical transistors (OECTs) are ideal devices for translating biological signals into electrical readouts and have applications in bioelectronics, biosensing, and neuromorphic computing. Despite their potential, developing programmable and modular methods for living systems to interface with OECTs has proven challenging. Here we describe hybrid OECTs containing the model electroactive bacterium Shewanella oneidensis that enable the transduction of biological computations to electrical responses. Specifically, we fabricated planar p-type OECTs and demonstrated that channel de-doping is driven by extracellular electron transfer (EET) from S. oneidensis. Leveraging this mechanistic understanding and our ability to control EET flux via transcriptional regulation, we used plasmid-based Boolean logic gates to translate biological computation into current changes within the OECT. Finally, we demonstrated EET-driven changes to OECT synaptic plasticity. This work enables fundamental EET studies and OECT-based biosensing and biocomputing systems with genetically controllable and modular design elements.

Suggested Citation

  • Yang Gao & Yuchen Zhou & Xudong Ji & Austin J. Graham & Christopher M. Dundas & Ismar E. Miniel Mahfoud & Bailey M. Tibbett & Benjamin Tan & Gina Partipilo & Ananth Dodabalapur & Jonathan Rivnay & Ben, 2024. "A hybrid transistor with transcriptionally controlled computation and plasticity," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
  • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-45759-1
    DOI: 10.1038/s41467-024-45759-1
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-024-45759-1
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/s41467-024-45759-1?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Jacob R. Rubens & Gianluca Selvaggio & Timothy K. Lu, 2016. "Synthetic mixed-signal computation in living cells," Nature Communications, Nature, vol. 7(1), pages 1-10, September.
    2. Luna Rizik & Loai Danial & Mouna Habib & Ron Weiss & Ramez Daniel, 2022. "Synthetic neuromorphic computing in living cells," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    3. Tianda Fu & Xiaomeng Liu & Shuai Fu & Trevor Woodard & Hongyan Gao & Derek R. Lovley & Jun Yao, 2021. "Self-sustained green neuromorphic interfaces," Nature Communications, Nature, vol. 12(1), pages 1-8, December.
    4. Ramiz Daniel & Jacob R. Rubens & Rahul Sarpeshkar & Timothy K. Lu, 2013. "Synthetic analog computation in living cells," Nature, Nature, vol. 497(7451), pages 619-623, May.
    5. Joshua T. Atkinson & Lin Su & Xu Zhang & George N. Bennett & Jonathan J. Silberg & Caroline M. Ajo-Franklin, 2022. "Real-time bioelectronic sensing of environmental contaminants," Nature, Nature, vol. 611(7936), pages 548-553, November.
    6. Thomas M. Groseclose & Ronald E. Rondon & Zachary D. Herde & Carlos A. Aldrete & Corey J. Wilson, 2020. "Engineered systems of inducible anti-repressors for the next generation of biological programming," Nature Communications, Nature, vol. 11(1), pages 1-15, December.
    7. Lewis Grozinger & Martyn Amos & Thomas E. Gorochowski & Pablo Carbonell & Diego A. Oyarzún & Ruud Stoof & Harold Fellermann & Paolo Zuliani & Huseyin Tas & Angel Goñi-Moreno, 2019. "Pathways to cellular supremacy in biocomputing," Nature Communications, Nature, vol. 10(1), pages 1-11, December.
    8. Xudong Ji & Bryan D. Paulsen & Gary K. K. Chik & Ruiheng Wu & Yuyang Yin & Paddy K. L. Chan & Jonathan Rivnay, 2021. "Mimicking associative learning using an ion-trapping non-volatile synaptic organic electrochemical transistor," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
    9. Wei Huang & Jianhua Chen & Yao Yao & Ding Zheng & Xudong Ji & Liang-Wen Feng & David Moore & Nicholas R. Glavin & Miao Xie & Yao Chen & Robert M. Pankow & Abhijith Surendran & Zhi Wang & Yu Xia & Libi, 2023. "Vertical organic electrochemical transistors for complementary circuits," Nature, Nature, vol. 613(7944), pages 496-502, January.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Yuanli Gao & Lei Wang & Baojun Wang, 2023. "Customizing cellular signal processing by synthetic multi-level regulatory circuits," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    2. Luna Rizik & Loai Danial & Mouna Habib & Ron Weiss & Ramez Daniel, 2022. "Synthetic neuromorphic computing in living cells," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    3. Giovanni Maria Matrone & Eveline R. W. Doremaele & Abhijith Surendran & Zachary Laswick & Sophie Griggs & Gang Ye & Iain McCulloch & Francesca Santoro & Jonathan Rivnay & Yoeri Burgt, 2024. "A modular organic neuromorphic spiking circuit for retina-inspired sensory coding and neurotransmitter-mediated neural pathways," Nature Communications, Nature, vol. 15(1), pages 1-9, December.
    4. Nadine Bongaerts & Zainab Edoo & Ayan A. Abukar & Xiaohu Song & Sebastián Sosa-Carrillo & Sarah Haggenmueller & Juline Savigny & Sophie Gontier & Ariel B. Lindner & Edwin H. Wintermute, 2022. "Low-cost anti-mycobacterial drug discovery using engineered E. coli," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    5. Padinhare Cholakkal Harikesh & Chi-Yuan Yang & Deyu Tu & Jennifer Y. Gerasimov & Abdul Manan Dar & Adam Armada-Moreira & Matteo Massetti & Renee Kroon & David Bliman & Roger Olsson & Eleni Stavrinidou, 2022. "Organic electrochemical neurons and synapses with ion mediated spiking," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    6. Tai-Yin Chiu & Hui-Ju K Chiang & Ruei-Yang Huang & Jie-Hong R Jiang & François Fages, 2015. "Synthesizing Configurable Biochemical Implementation of Linear Systems from Their Transfer Function Specifications," PLOS ONE, Public Library of Science, vol. 10(9), pages 1-27, September.
    7. Peiyun Li & Junwei Shi & Yuqiu Lei & Zhen Huang & Ting Lei, 2022. "Switching p-type to high-performance n-type organic electrochemical transistors via doped state engineering," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
    8. Brian D. Huang & Thomas M. Groseclose & Corey J. Wilson, 2022. "Transcriptional programming in a Bacteroides consortium," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    9. Andrew E. Short & Dowan Kim & Prasaad T. Milner & Corey J. Wilson, 2023. "Next generation synthetic memory via intercepting recombinase function," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    10. John P. Marken & Richard M. Murray, 2023. "Addressable and adaptable intercellular communication via DNA messaging," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    11. Tianyu Wang & Jialin Meng & Xufeng Zhou & Yue Liu & Zhenyu He & Qi Han & Qingxuan Li & Jiajie Yu & Zhenhai Li & Yongkai Liu & Hao Zhu & Qingqing Sun & David Wei Zhang & Peining Chen & Huisheng Peng & , 2022. "Reconfigurable neuromorphic memristor network for ultralow-power smart textile electronics," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
    12. Chengpeng Jiang & Jiaqi Liu & Yao Ni & Shangda Qu & Lu Liu & Yue Li & Lu Yang & Wentao Xu, 2023. "Mammalian-brain-inspired neuromorphic motion-cognition nerve achieves cross-modal perceptual enhancement," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    13. Ji Hwan Kim & Roman Halaksa & Il-Young Jo & Hyungju Ahn & Peter A. Gilhooly-Finn & Inho Lee & Sungjun Park & Christian B. Nielsen & Myung-Han Yoon, 2023. "Peculiar transient behaviors of organic electrochemical transistors governed by ion injection directionality," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    14. Ahmed A. Agiza & Kady Oakley & Jacob K. Rosenstein & Brenda M. Rubenstein & Eunsuk Kim & Marc Riedel & Sherief Reda, 2023. "Digital circuits and neural networks based on acid-base chemistry implemented by robotic fluid handling," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    15. Dalton R. George & Mark Danciu & Peter W. Davenport & Matthew R. Lakin & James Chappell & Emma K. Frow, 2024. "A bumpy road ahead for genetic biocontainment," Nature Communications, Nature, vol. 15(1), pages 1-5, December.
    16. Xudong Ji & Xuanyi Lin & Jonathan Rivnay, 2023. "Organic electrochemical transistors as on-site signal amplifiers for electrochemical aptamer-based sensing," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    17. Shivang Hina-Nilesh Joshi & Chentao Yong & Andras Gyorgy, 2022. "Inducible plasmid copy number control for synthetic biology in commonly used E. coli strains," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    18. Pei-Yu Huang & Bi-Yi Jiang & Hong-Ji Chen & Jia-Yi Xu & Kang Wang & Cheng-Yi Zhu & Xin-Yan Hu & Dong Li & Liang Zhen & Fei-Chi Zhou & Jing-Kai Qin & Cheng-Yan Xu, 2023. "Neuro-inspired optical sensor array for high-accuracy static image recognition and dynamic trace extraction," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    19. Chungryeol Lee & Changhyeon Lee & Seungmin Lee & Junhwan Choi & Hocheon Yoo & Sung Gap Im, 2023. "A reconfigurable binary/ternary logic conversion-in-memory based on drain-aligned floating-gate heterojunction transistors," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    20. Sally Wang & Chen-Yu Chen & John R. Rzasa & Chen-Yu Tsao & Jinyang Li & Eric VanArsdale & Eunkyoung Kim & Fauziah Rahma Zakaria & Gregory F. Payne & William E. Bentley, 2023. "Redox-enabled electronic interrogation and feedback control of hierarchical and networked biological systems," Nature Communications, Nature, vol. 14(1), pages 1-17, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-45759-1. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.