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| Status |
Public on Nov 18, 2021 |
| Title |
High-throughput Ig and TCR repertoire single-cell sequencing analysis in rhesus macaques |
| Organism |
Macaca mulatta |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Recent advancements in microfluidics and high-throughput sequencing technologies have enabled recovery of paired heavy- and light- chain of immunoglobulins (Ig) and VDJ- and VJ- chains of T cell receptors (TCR) from thousands of single cells simultaneously. Due to the complexity of these polyclonal receptors, for many species single-cell immune repertoire sequencing assays are not yet commercially available. Rhesus macaques are one of the most well-studied model organisms of the human adaptive immune response; application of these new immune repertoire sequencing assays is highly relevant to vaccine and infectious disease studies. Here we use custom designed primers to target and enrich for every known Ig and TCR chain and isotype in the rhesus macaque animal model. We sequenced more than 110,000 cell barcodes from rhesus macaque repertoires using PBMC, splenocyte, and FACS-sorted T and B cell. We were able to recover every Ig and TCR isotype, measure clonal expansion in proliferating T cells, and pair repertoires with gene expression profiles of single cells. Our results establish the ability to perform single-cell based immune repertoire analysis in rhesus macaque.
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| Overall design |
High-throughput single-cell sequencing of T and B cell receptor sequences from 6 samples (2 PBMC, splenocyte, stimulated B cells, and stimulated T cells divided into proliferating and non-proliferating fractions). In addition, 5' GEX profiles were also sequenced for all but one PBMC sample. This dataset includes the 5' GEM profiles.
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| Contributor(s) |
Walsh ES, Tollison TS, Brochu HN, Shaw BI, Dively KR, Chou H, Law L, Kirk AD, Gale M, Peng X |
| Citation(s) |
34987112 |
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| Submission date |
Jul 08, 2021 |
| Last update date |
Oct 05, 2023 |
| Contact name |
Xinxia Peng |
| Organization name |
North Carolina State University
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| Street address |
1060 William Moore Drive
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| City |
Raleigh |
| ZIP/Postal code |
27607 |
| Country |
USA |
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| Platforms (1) |
| GPL21120 |
Illumina NextSeq 500 (Macaca mulatta) |
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| Samples (5)
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| GSM5429987 |
FAC-sorted stimulated T cells, non-proliferating |
| GSM5429988 |
FAC-sorted stimulated T cells, proliferating |
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| Relations |
| BioProject |
PRJNA744766 |
| SRA |
SRP327484 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE179722_RAW.tar |
53.0 Mb |
(http)(custom) |
TAR (of H5) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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