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

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 () and Richard G. James ()
Additional contact information
Rene Yu-Hong Cheng: Seattle Children Research Institute
Joseph de Rutte: Partillion Bioscience
Cade Ellis K. Ito: Seattle Children Research Institute
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
Dino Di Carlo: Partillion Bioscience
Richard G. James: Seattle Children Research Institute

Nature Communications, 2023, vol. 14, issue 1, 1-15

Abstract: 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.

Date: 2023
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DOI: 10.1038/s41467-023-39367-8

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