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Surveying silicon nitride nanopores for glycomics and heparin quality assurance

Author

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  • Buddini Iroshika Karawdeniya

    (University of Rhode Island)

  • Y. M. Nuwan D. Y. Bandara

    (University of Rhode Island)

  • Jonathan W. Nichols

    (University of Rhode Island)

  • Robert B. Chevalier

    (University of Rhode Island)

  • Jason R. Dwyer

    (University of Rhode Island)

Abstract

Polysaccharides have key biological functions and can be harnessed for therapeutic roles, such as the anticoagulant heparin. Their complexity—e.g., >100 monosaccharides with variety in linkage and branching structure—significantly complicates analysis compared to other biopolymers such as DNA and proteins. More, and improved, analysis tools have been called for, and here we demonstrate that solid-state silicon nitride nanopore sensors and tuned sensing conditions can be used to reliably detect native polysaccharides and enzymatic digestion products, differentiate between different polysaccharides in straightforward assays, provide new experimental insights into nanopore electrokinetics, and uncover polysaccharide properties. We show that nanopore sensing allows us to easily differentiate between a clinical heparin sample and one spiked with the contaminant that caused deaths in 2008 when its presence went undetected by conventional assays. The work reported here lays a foundation to further explore polysaccharide characterization and develop assays using thin-film solid-state nanopore sensors.

Suggested Citation

  • Buddini Iroshika Karawdeniya & Y. M. Nuwan D. Y. Bandara & Jonathan W. Nichols & Robert B. Chevalier & Jason R. Dwyer, 2018. "Surveying silicon nitride nanopores for glycomics and heparin quality assurance," Nature Communications, Nature, vol. 9(1), pages 1-8, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-05751-y
    DOI: 10.1038/s41467-018-05751-y
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    Cited by:

    1. Jianxin Yang & Tianle Pan & Zhenming Xie & Wu Yuan & Ho-Pui Ho, 2024. "In-tube micro-pyramidal silicon nanopore for inertial-kinetic sensing of single molecules," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    2. Parisa Bayat & Charlotte Rambaud & Bernard Priem & Matthieu Bourderioux & Mélanie Bilong & Salomé Poyer & Manuela Pastoriza-Gallego & Abdelghani Oukhaled & Jérôme Mathé & Régis Daniel, 2022. "Comprehensive structural assignment of glycosaminoglycan oligo- and polysaccharides by protein nanopore," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    3. Minmin Li & Yuting Xiong & Yuchen Cao & Chen Zhang & Yuting Li & Hanwen Ning & Fan Liu & Han Zhou & Xiaonong Li & Xianlong Ye & Yue Pang & Jiaming Zhang & Xinmiao Liang & Guangyan Qing, 2023. "Identification of tagged glycans with a protein nanopore," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    4. Lauren S. Lastra & Y. M. Nuwan D. Y. Bandara & Michelle Nguyen & Nasim Farajpour & Kevin J. Freedman, 2022. "On the origins of conductive pulse sensing inside a nanopore," Nature Communications, Nature, vol. 13(1), pages 1-11, December.

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