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Biomolecular condensate phase diagrams with a combinatorial microdroplet platform

Author

Listed:
  • William E. Arter

    (University of Cambridge)

  • Runzhang Qi

    (University of Cambridge)

  • Nadia A. Erkamp

    (University of Cambridge)

  • Georg Krainer

    (University of Cambridge)

  • Kieran Didi

    (University of Cambridge)

  • Timothy J. Welsh

    (University of Cambridge)

  • Julia Acker

    (University of Cambridge)

  • Jonathan Nixon-Abell

    (University of Cambridge)

  • Seema Qamar

    (University of Cambridge)

  • Jordina Guillén-Boixet

    (Technische Universität Dresden)

  • Titus M. Franzmann

    (Technische Universität Dresden)

  • David Kuster

    (Max Planck Institute for Molecular Cell Biology and Genetics)

  • Anthony A. Hyman

    (Max Planck Institute for Molecular Cell Biology and Genetics)

  • Alexander Borodavka

    (University of Cambridge)

  • Peter St George-Hyslop

    (University of Cambridge
    University of Toronto and University Health Network
    Columbia University)

  • Simon Alberti

    (Technische Universität Dresden)

  • Tuomas P. J. Knowles

    (University of Cambridge
    University of Cambridge)

Abstract

The assembly of biomolecules into condensates is a fundamental process underlying the organisation of the intracellular space and the regulation of many cellular functions. Mapping and characterising phase behaviour of biomolecules is essential to understand the mechanisms of condensate assembly, and to develop therapeutic strategies targeting biomolecular condensate systems. A central concept for characterising phase-separating systems is the phase diagram. Phase diagrams are typically built from numerous individual measurements sampling different parts of the parameter space. However, even when performed in microwell plate format, this process is slow, low throughput and requires significant sample consumption. To address this challenge, we present here a combinatorial droplet microfluidic platform, termed PhaseScan, for rapid and high-resolution acquisition of multidimensional biomolecular phase diagrams. Using this platform, we characterise the phase behaviour of a wide range of systems under a variety of conditions and demonstrate that this approach allows the quantitative characterisation of the effect of small molecules on biomolecular phase transitions.

Suggested Citation

  • William E. Arter & Runzhang Qi & Nadia A. Erkamp & Georg Krainer & Kieran Didi & Timothy J. Welsh & Julia Acker & Jonathan Nixon-Abell & Seema Qamar & Jordina Guillén-Boixet & Titus M. Franzmann & Dav, 2022. "Biomolecular condensate phase diagrams with a combinatorial microdroplet platform," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
  • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-35265-7
    DOI: 10.1038/s41467-022-35265-7
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    1. Fan Wu & Su Zhao & Bin Yu & Yan-Mei Chen & Wen Wang & Zhi-Gang Song & Yi Hu & Zhao-Wu Tao & Jun-Hua Tian & Yuan-Yuan Pei & Ming-Li Yuan & Yu-Ling Zhang & Fa-Hui Dai & Yi Liu & Qi-Min Wang & Jiao-Jiao , 2020. "Author Correction: A new coronavirus associated with human respiratory disease in China," Nature, Nature, vol. 580(7803), pages 7-7, April.
    2. W. Michael Babinchak & Benjamin K. Dumm & Sarah Venus & Solomiia Boyko & Andrea A. Putnam & Eckhard Jankowsky & Witold K. Surewicz, 2020. "Small molecules as potent biphasic modulators of protein liquid-liquid phase separation," Nature Communications, Nature, vol. 11(1), pages 1-15, December.
    3. Shan Lu & Qiaozhen Ye & Digvijay Singh & Yong Cao & Jolene K. Diedrich & John R. Yates & Elizabeth Villa & Don W. Cleveland & Kevin D. Corbett, 2021. "The SARS-CoV-2 nucleocapsid phosphoprotein forms mutually exclusive condensates with RNA and the membrane-associated M protein," Nature Communications, Nature, vol. 12(1), pages 1-15, December.
    4. Juliane U. Klamser & Sebastian C. Kapfer & Werner Krauth, 2018. "Thermodynamic phases in two-dimensional active matter," Nature Communications, Nature, vol. 9(1), pages 1-8, December.
    5. Fan Wu & Su Zhao & Bin Yu & Yan-Mei Chen & Wen Wang & Zhi-Gang Song & Yi Hu & Zhao-Wu Tao & Jun-Hua Tian & Yuan-Yuan Pei & Ming-Li Yuan & Yu-Ling Zhang & Fa-Hui Dai & Yi Liu & Qi-Min Wang & Jiao-Jiao , 2020. "A new coronavirus associated with human respiratory disease in China," Nature, Nature, vol. 579(7798), pages 265-269, March.
    6. Joshua A. Riback & Lian Zhu & Mylene C. Ferrolino & Michele Tolbert & Diana M. Mitrea & David W. Sanders & Ming-Tzo Wei & Richard W. Kriwacki & Clifford P. Brangwynne, 2020. "Composition-dependent thermodynamics of intracellular phase separation," Nature, Nature, vol. 581(7807), pages 209-214, May.
    7. Georg Krainer & Timothy J. Welsh & Jerelle A. Joseph & Jorge R. Espinosa & Sina Wittmann & Ella Csilléry & Akshay Sridhar & Zenon Toprakcioglu & Giedre Gudiškytė & Magdalena A. Czekalska & William E. , 2021. "Reentrant liquid condensate phase of proteins is stabilized by hydrophobic and non-ionic interactions," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
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    Cited by:

    1. Tomas Sneideris & Nadia A. Erkamp & Hannes Ausserwöger & Kadi L. Saar & Timothy J. Welsh & Daoyuan Qian & Kai Katsuya-Gaviria & Margaret L. L. Y. Johncock & Georg Krainer & Alexander Borodavka & Tuoma, 2023. "Targeting nucleic acid phase transitions as a mechanism of action for antimicrobial peptides," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    2. Etienne Jambon-Puillet & Andrea Testa & Charlotta Lorenz & Robert W. Style & Aleksander A. Rebane & Eric R. Dufresne, 2024. "Phase-separated droplets swim to their dissolution," Nature Communications, Nature, vol. 15(1), pages 1-12, December.

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