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PLoS One. 2019 Jul 1;14(7):e0218858. doi: 10.1371/journal.pone.0218858. eCollection 2019.

Transcriptomes of antigen presenting cells in human thymus.

Author information

1
Department of Medical Genetics, University of Oslo and Oslo University Hospital, Oslo, Norway.
2
K. G. Jebsen Inflammation Research Centre, University of Oslo, Oslo, Norway.
3
Institute of Clinical Medicine, University of Oslo, Oslo, Norway.
4
Department of Medical Biochemistry, Oslo University Hospital, Oslo, Norway.
5
Diabetes Research Institute, Miller School of Medicine, University of Miami, Miami, Florida, United States of America.
6
Department of Medicine, Division of Endocrinology, Diabetes and Metabolism, Microbiology and Immunology, Miller School of Medicine, University of Miami, Miami, Florida, United States of America.

Abstract

Antigen presenting cells (APCs) in the thymus play an essential role in the establishment of central tolerance, i.e. the generation of a repertoire of functional and self-tolerant T cells to prevent autoimmunity. In this study, we have compared the transcriptomes of four primary APCs from human thymus (mTECs, CD19+ B cells, CD141+ and CD123+ DCs). We investigated a set of genes including the HLA genes, genes encoding transcriptional regulators and finally, tissue-enriched genes, i.e, genes with a five-fold higher expression in a particular human tissue. We show that thymic CD141+ DCs express the highest levels of all classical HLA genes and 67% (14/21) of the HLA class I and II pathway genes investigated in this study. CD141+ DCs also expressed the highest levels of the transcriptional regulator DEAF1, whereas AIRE and FEZF2 expression were mainly found in primary human mTECs. We found expression of "tissue enriched genes" from the Human Protein Atlas (HPA) in all four APC types, but the mTECs were clearly dominating in the number of uniquely expressed tissue enriched genes (20% in mTECs, 7% in CD19+ B cells, 4% in CD123+ DCs and 2% in CD141+ DCs). The tissue enriched genes also overlapped with reported human autoantigens. This is, to our knowledge, the first study that performs RNA sequencing of mTECs, CD19+ B cells, CD141+ and CD123+ DCs isolated from the same individuals and provides insight into the transcriptomes of these human thymic APCs.

Conflict of interest statement

The authors have declared that no competing interests exist.

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