SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells
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 wor...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2023-06-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-39367-8 |
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| author | 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 |
| author_facet | 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 |
| author_sort | Rene Yu-Hong Cheng |
| collection | DOAJ |
| description | 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. |
| format | Article |
| id | doaj-art-d6f5adbaa8db45bda83806a93d331da5 |
| institution | OA Journals |
| issn | 2041-1723 |
| language | English |
| publishDate | 2023-06-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj-art-d6f5adbaa8db45bda83806a93d331da52025-08-20T02:15:11ZengNature PortfolioNature Communications2041-17232023-06-0114111510.1038/s41467-023-39367-8SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cellsRene Yu-Hong Cheng0Joseph de Rutte1Cade Ellis K. Ito2Andee R. Ott3Lucie Bosler4Wei-Ying Kuo5Jesse Liang6Brian E. Hall7David J. Rawlings8Dino Di Carlo9Richard G. James10Center of Immunotherapy and Immunity, Seattle Children Research InstitutePartillion BioscienceCenter of Immunotherapy and Immunity, Seattle Children Research InstituteCenter of Immunotherapy and Immunity, Seattle Children Research InstitutePartillion BiosciencePartillion BiosciencePartillion BioscienceLuminex corporationCenter of Immunotherapy and Immunity, Seattle Children Research InstitutePartillion BioscienceCenter of Immunotherapy and Immunity, Seattle Children Research InstituteAbstract 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.https://doi.org/10.1038/s41467-023-39367-8 |
| spellingShingle | 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 SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells Nature Communications |
| title | SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| title_full | SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| title_fullStr | SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| title_full_unstemmed | SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| title_short | SEC-seq: association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| title_sort | sec seq association of molecular signatures with antibody secretion in thousands of single human plasma cells |
| url | https://doi.org/10.1038/s41467-023-39367-8 |
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