IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v14y2023i1d10.1038_s41467-023-36024-y.html
   My bibliography  Save this article

Differential sensing with arrays of de novo designed peptide assemblies

Author

Listed:
  • William M. Dawson

    (University of Bristol, Cantock’s Close)

  • Kathryn L. Shelley

    (University of Bristol, Cantock’s Close
    University of Bristol, Medical Sciences Building, University Walk)

  • Jordan M. Fletcher

    (University of Bristol, Cantock’s Close
    Rosa Biotech, Science Creates St Philips)

  • D. Arne Scott

    (University of Bristol, Cantock’s Close
    University of Bristol, Medical Sciences Building, University Walk
    Rosa Biotech, Science Creates St Philips)

  • Lucia Lombardi

    (University of Bristol, Cantock’s Close
    University of Bristol, School of Chemistry
    Imperial College London)

  • Guto G. Rhys

    (University of Bristol, Cantock’s Close
    University of Bayreuth
    Cardiff University, Main Building)

  • Tania J. LaGambina

    (Rosa Biotech, Science Creates St Philips)

  • Ulrike Obst

    (Rosa Biotech, Science Creates St Philips)

  • Antony J. Burton

    (University of Bristol, Cantock’s Close
    AstraZeneca)

  • Jessica A. Cross

    (University of Bristol, Cantock’s Close
    University of Bristol, Medical Sciences Building, University Walk)

  • George Davies

    (University of Bristol, Cantock’s Close)

  • Freddie J. O. Martin

    (University of Bristol, Cantock’s Close)

  • Francis J. Wiseman

    (University of Bristol, Cantock’s Close)

  • R. Leo Brady

    (University of Bristol, Medical Sciences Building, University Walk)

  • David Tew

    (GlaxoSmithKline (GSK))

  • Christopher W. Wood

    (University of Bristol, Cantock’s Close
    University of Bristol, Medical Sciences Building, University Walk
    University of Edinburgh)

  • Derek N. Woolfson

    (University of Bristol, Cantock’s Close
    University of Bristol, Medical Sciences Building, University Walk
    University of Bristol, School of Chemistry)

Abstract

Differential sensing attempts to mimic the mammalian senses of smell and taste to identify analytes and complex mixtures. In place of hundreds of complex, membrane-bound G-protein coupled receptors, differential sensors employ arrays of small molecules. Here we show that arrays of computationally designed de novo peptides provide alternative synthetic receptors for differential sensing. We use self-assembling α-helical barrels (αHBs) with central channels that can be altered predictably to vary their sizes, shapes and chemistries. The channels accommodate environment-sensitive dyes that fluoresce upon binding. Challenging arrays of dye-loaded barrels with analytes causes differential fluorophore displacement. The resulting fluorimetric fingerprints are used to train machine-learning models that relate the patterns to the analytes. We show that this system discriminates between a range of biomolecules, drink, and diagnostically relevant biological samples. As αHBs are robust and chemically diverse, the system has potential to sense many analytes in various settings.

Suggested Citation

  • William M. Dawson & Kathryn L. Shelley & Jordan M. Fletcher & D. Arne Scott & Lucia Lombardi & Guto G. Rhys & Tania J. LaGambina & Ulrike Obst & Antony J. Burton & Jessica A. Cross & George Davies & F, 2023. "Differential sensing with arrays of de novo designed peptide assemblies," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-36024-y
    DOI: 10.1038/s41467-023-36024-y
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-023-36024-y
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/s41467-023-36024-y?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. Ole Herud-Sikimić & Andre C. Stiel & Martina Kolb & Sooruban Shanmugaratnam & Kenneth W. Berendzen & Christian Feldhaus & Birte Höcker & Gerd Jürgens, 2021. "A biosensor for the direct visualization of auxin," Nature, Nature, vol. 592(7856), pages 768-772, April.
    2. Guto G. Rhys & Christopher W. Wood & Eric J. M. Lang & Adrian J. Mulholland & R. Leo Brady & Andrew R. Thomson & Derek N. Woolfson, 2018. "Maintaining and breaking symmetry in homomeric coiled-coil assemblies," Nature Communications, Nature, vol. 9(1), pages 1-12, December.
    3. Alfredo Quijano-Rubio & Hsien-Wei Yeh & Jooyoung Park & Hansol Lee & Robert A. Langan & Scott E. Boyken & Marc J. Lajoie & Longxing Cao & Cameron M. Chow & Marcos C. Miranda & Jimin Wi & Hyo Jeong Hon, 2021. "De novo design of modular and tunable protein biosensors," Nature, Nature, vol. 591(7850), pages 482-487, March.
    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. Huimeng Wang & Yi Fan & Yaqi Hou & Baiyi Chen & Jinmei Lei & Shijie Yu & Xinyu Chen & Xu Hou, 2022. "Host-guest liquid gating mechanism with specific recognition interface behavior for universal quantitative chemical detection," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    2. Xueyan Chen & Qianqian Ding & Chao Bi & Jian Ruan & Shikuan Yang, 2022. "Lossless enrichment of trace analytes in levitating droplets for multiphase and multiplex detection," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    3. Yasmine S. Zubi & Kosuke Seki & Ying Li & Andrew C. Hunt & Bingqing Liu & Benoît Roux & Michael C. Jewett & Jared C. Lewis, 2022. "Metal-responsive regulation of enzyme catalysis using genetically encoded chemical switches," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
    4. Robert E. Jefferson & Aurélien Oggier & Andreas Füglistaler & Nicolas Camviel & Mahdi Hijazi & Ana Rico Villarreal & Caroline Arber & Patrick Barth, 2023. "Computational design of dynamic receptor—peptide signaling complexes applied to chemotaxis," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    5. Heonjoon Lee & Tian Xie & Byunghwa Kang & Xinjie Yu & Samuel W. Schaffter & Rebecca Schulman, 2024. "Plug-and-play protein biosensors using aptamer-regulated in vitro transcription," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    6. Zhong Guo & Rinky D. Parakra & Ying Xiong & Wayne A. Johnston & Patricia Walden & Selvakumar Edwardraja & Shayli Varasteh Moradi & Jacobus P. J. Ungerer & Hui-wang Ai & Jonathan J. Phillips & Kirill A, 2022. "Engineering and exploiting synthetic allostery of NanoLuc luciferase," Nature Communications, Nature, vol. 13(1), pages 1-12, 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:14:y:2023:i:1:d:10.1038_s41467-023-36024-y. 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.