IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v14y2023i1d10.1038_s41467-023-39367-8.html
   My bibliography  Save this article

SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells

Author

Listed:
  • Rene Yu-Hong Cheng

    (Seattle Children Research Institute
    University of Washington)

  • Joseph de Rutte

    (Partillion Bioscience)

  • Cade Ellis K. Ito

    (Seattle Children Research Institute
    University of Washington)

  • Andee R. Ott

    (Seattle Children Research Institute)

  • Lucie Bosler

    (Partillion Bioscience)

  • Wei-Ying Kuo

    (Partillion Bioscience)

  • Jesse Liang

    (Partillion Bioscience)

  • Brian E. Hall

    (Luminex corporation)

  • David J. Rawlings

    (Seattle Children Research Institute
    University of Washington
    University of Washington)

  • Dino Di Carlo

    (Partillion Bioscience
    University of California - Los Angeles
    Department of Mechanical and Aerospace Engineering
    University of California - Los Angeles)

  • Richard G. James

    (Seattle Children Research Institute
    University of Washington
    University of Washington
    University of Washington)

Abstract

The secreted products of cells drive many functions in vivo; however, methods to link this functional information to surface markers and transcriptomes have been lacking. By accumulating secretions close to secreting cells held within cavity-containing hydrogel nanovials, we demonstrate workflows to analyze the amount of IgG secreted from single human B cells and link this information to surface markers and transcriptomes from the same cells. Measurements using flow cytometry and imaging flow cytometry corroborate the association between IgG secretion and CD38/CD138. By using oligonucleotide-labeled antibodies we find that upregulation of pathways for protein localization to the endoplasmic reticulum and mitochondrial oxidative phosphorylation are most associated with high IgG secretion, and uncover surrogate plasma cell surface markers (e.g., CD59) defined by the ability to secrete IgG. Altogether, this method links quantity of secretion with single-cell sequencing (SEC-seq) and enables researchers to fully explore the links between genome and function, laying the foundation for discoveries in immunology, stem cell biology, and beyond.

Suggested Citation

  • Rene Yu-Hong Cheng & Joseph de Rutte & Cade Ellis K. Ito & Andee R. Ott & Lucie Bosler & Wei-Ying Kuo & Jesse Liang & Brian E. Hall & David J. Rawlings & Dino Di Carlo & Richard G. James, 2023. "SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-39367-8
    DOI: 10.1038/s41467-023-39367-8
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-023-39367-8
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/s41467-023-39367-8?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. Christopher D. Scharer & Dillon G. Patterson & Tian Mi & Madeline J. Price & Sakeenah L. Hicks & Jeremy M. Boss, 2020. "Antibody-secreting cell destiny emerges during the initial stages of B-cell activation," Nature Communications, Nature, vol. 11(1), pages 1-14, December.
    2. Sindhuja Sridharan & Nils Kurzawa & Thilo Werner & Ina Günthner & Dominic Helm & Wolfgang Huber & Marcus Bantscheff & Mikhail M. Savitski, 2019. "Proteome-wide solubility and thermal stability profiling reveals distinct regulatory roles for ATP," Nature Communications, Nature, vol. 10(1), pages 1-13, December.
    3. Rene Yu-Hong Cheng & King L. Hung & Tingting Zhang & Claire M. Stoffers & Andee R. Ott & Emmaline R. Suchland & Nathan D. Camp & Iram F. Khan & Swati Singh & Ying-Jen Yang & David J. Rawlings & Richar, 2022. "Ex vivo engineered human plasma cells exhibit robust protein secretion and long-term engraftment in vivo," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Doyeon Koo & Xiao Cheng & Shreya Udani & Sevana Baghdasarian & Dashuai Zhu & Junlang Li & Brian Hall & Natalie Tsubamoto & Shiqi Hu & Jina Ko & Ke Cheng & Dino Di Carlo, 2024. "Optimizing cell therapy by sorting cells with high extracellular vesicle secretion," Nature Communications, Nature, vol. 15(1), pages 1-14, December.

    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. Cristina Sayago & Jana Sánchez-Wandelmer & Fernando García & Begoña Hurtado & Vanesa Lafarga & Patricia Prieto & Eduardo Zarzuela & Pilar Ximénez-Embún & Sagrario Ortega & Diego Megías & Oscar Fernánd, 2023. "Decoding protein methylation function with thermal stability analysis," Nature Communications, Nature, vol. 14(1), pages 1-18, 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_s41467-023-39367-8. 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.