RT Journal Article SR Electronic T1 Single-cell Transcriptomic Analysis Reveals the Cellular Heterogeneity of Mesenchymal Stem Cells JF bioRxiv FD Cold Spring Harbor Laboratory SP 2021.11.24.469676 DO 10.1101/2021.11.24.469676 A1 Chen Zhang A1 Xueshuai Han A1 Jingkun Liu A1 Lei Chen A1 Ying Lei A1 Kunying Chen A1 Jia Si A1 Tian-yi Wang A1 Hui Zhou A1 Xiaoyun Zhao A1 Xiaohui Zhang A1 Yihua An A1 Yueying Li A1 Qian-fei Wang YR 2021 UL http://biorxiv.org/content/early/2021/11/24/2021.11.24.469676.abstract AB Ex vivo-expanded mesenchymal stem cells (MSCs) have been demonstrated to be a heterogeneous mixture of cells exhibiting varying proliferative, multipotential, and immunomodulatory capacities. However, the exact characteristics of MSCs remain largely unknown. By single-cell RNA sequencing of 61,296 MSCs derived from bone marrow and Wharton’s jelly, we revealed five distinct subpopulations. The developmental trajectory of these five MSC subpopulations were mapped, revealing a differentiation path from stem-like active proliferative cells (APCs) to multipotent progenitor cells, followed by the branching into two paths – adipogenesis or osteochondrogenesis – and subsequent differentiation into unipotent prechondrocytes. The stem-like APCs, expressing the perivascular mesodermal progenitor markers CSPG4/MCAM/NES, uniquely exhibited strong proliferation and stemness signatures. Remarkably, the prechondrocyte subpopulation specifically expressed immunomodulatory genes and was able to suppress activated CD3+ T cell proliferation in vitro, supporting the role of this population in immunoregulation. In summary, our analysis mapped the heterogeneous subpopulations of MSCs and identified two subpopulations with potential functions in self-renewal and immunoregulation. Our findings advance the definition of MSCs by identifying the specific functions of its heterogeneous cellular composition, allowing for more specific and effective MSC application through the purification of its functional subpopulations.Competing Interest StatementThe authors have declared no competing interest.