Diverse, distinct, and densely packed DNA nanostar droplets

The liquid-liquid phase separation of biomolecules is an important process for intracellular organization. Biomolecular sequence combinatorics leads to a large variety of proteins and nucleic acids which can interact to form a diversity of dense liquid ("condensate") phases. The relationship between sequence design and the diversity of the resultant phases is therefore of interest. Here, we explore this question using the DNA nanostar system which permits the creation of multiphase condensate droplets through sequence engineering of the sticky end bonds that drive particle-particle attraction. We explore the theoretical limits of nanostar phase diversity, then experimentally demonstrate the ability to create nine distinct, nonadhering nanostar phases that do not share components. We further study how different thermal histories affect the morphology and dynamics of such a highly diverse condensate system. We particularly show that a rapid temperature quench leads to the formation of a densely packed 2-D layer of droplets that is transiently stabilized by caging effects enabled by the phase diversity, leading to glassy dynamics such as slow coarsening and dynamic heterogeneity. Generally, our work provides experimental insight into the thermodynamics of phase separation of complex mixtures and demonstrates the rational engineering of complex, long-range, multiphase droplet structures.

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Publication Details

Journal
Proceedings of the National Academy of Sciences
Published
2026-02-12
DOI
https://doi.org/10.1073/pnas.2523462123
Primary Topic
RNA Research and Splicing
Type
article
Field-Weighted Citation Impact
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article

Diverse, distinct, and densely packed DNA nanostar droplets

Sam Wilken, Aria Chaderjian, Omar Saleh
Proceedings of the National Academy of Sciences
RNA Research and Splicing
article

Diverse, distinct, and densely packed DNA nanostar droplets

Sam Wilken, Aria Chaderjian, Omar Saleh
article en

Abstract

The liquid-liquid phase separation of biomolecules is an important process for intracellular organization. Biomolecular sequence combinatorics leads to a large variety of proteins and nucleic acids which can interact to form a diversity of dense liquid ("condensate") phases. The relationship between sequence design and the diversity of the resultant phases is therefore of interest. Here, we explore this question using the DNA nanostar system which permits the creation of multiphase condensate droplets through sequence engineering of the sticky end bonds that drive particle-particle attraction. We explore the theoretical limits of nanostar phase diversity, then experimentally demonstrate the ability to create nine distinct, nonadhering nanostar phases that do not share components. We further study how different thermal histories affect the morphology and dynamics of such a highly diverse condensate system. We particularly show that a rapid temperature quench leads to the formation of a densely packed 2-D layer of droplets that is transiently stabilized by caging effects enabled by the phase diversity, leading to glassy dynamics such as slow coarsening and dynamic heterogeneity. Generally, our work provides experimental insight into the thermodynamics of phase separation of complex mixtures and demonstrates the rational engineering of complex, long-range, multiphase droplet structures.

Proceedings of the National Academy of SciencesVol. 123(7)
University of California System (US)
Openalex Percentile: Top 58%
RNA Research and Splicing
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