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Series GSE148416 Query DataSets for GSE148416
Status Public on Jan 25, 2021
Title Single cell resolution landscape of equine peripheral blood mononuclear cells reveals diverse immune cell subtypes including T-bet+ B cells
Organism Equus caballus
Experiment type Expression profiling by high throughput sequencing
Summary Traditional laboratory model organisms represent a small fraction of the diversity of multicellular life, and findings in any given experimental model often do not translate to other species. Immunology research in non-traditional model organisms presents multiple challenges, many stemming from an incomplete understanding of potentially species-specific immune cell types, frequencies and phenotypes. Identifying and characterizing immune cells in such organisms is frequently limited by the availability of species-reactive immunophenotyping reagents for flow cytometry, and insufficient prior knowledge of cell type-defining markers. Here, we demonstrate the utility of single cell RNA sequencing (scRNA-Seq) to characterize immune cells for which traditional experimental tools are limiting. Specifically, we used scRNA-Seq to comprehensively define the cellular diversity of equine peripheral blood mononuclear cells (PBMCs) from healthy horses across different breeds, ages, and sexes. We identified 30 cell type clusters partitioned into five major populations: Monocytes/Dendritic Cells, B cells, CD3+PRF1+ lymphocytes, CD3+PRF1- lymphocytes, and Basophils. Comparative analyses revealed many analogous cell populations in human PBMC, including transcriptionally heterogeneous monocytes and distinct dendritic cell subsets (cDC1, cDC2, plasmacytoid DC). Unexpectedly, we found that a majority of the equine peripheral B cell compartment is comprised of T-bet+ B cells; an immune cell subpopulation typically associated with chronic infection and inflammation in human and mouse. Taken together, our results demonstrate the potential of scRNA-Seq for cellular analyses in non-traditional model organisms, and form the basis for an immune cell atlas of horse peripheral blood.
Overall design Single cell RNA sequencing of libraries prepared from equine peripheral blood mononuclear cells from 7 subjects
Contributor(s) Patel R, Tomlinson J, Divers T, Van De Walle G, Rosenberg B
Citation(s) 33482825
Submission date Apr 09, 2020
Last update date Feb 22, 2021
Contact name Gerlinde Van de Walle
Organization name Cornell University
Department Microbiology and Immunology
Lab Gerlinde Van de Walle
Street address 235 Hungerford Hill Road
City Ithaca
State/province NY
ZIP/Postal code 14853
Country USA
Platforms (1)
GPL21401 Illumina NextSeq 500 (Equus caballus)
Samples (7)
GSM4468651 s1_pbmc_10x_esat
GSM4468652 s2_pbmc_10x_esat
GSM4468653 s3_pbmc_10x_esat
BioProject PRJNA624161
SRA SRP255906

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Supplementary file Size Download File type/resource
GSE148416_RAW.tar 50.6 Mb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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