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Mesenchymal stromal cells (MSCs) have anti-inflammatory, muscle repair, and immunomodulatory properties. Their capability to treat autoimmune diseases mainly is dependent on secreted extracellular vesicles, especially exosomes. The results of exosomes and microRNAs (miRNAs) on SLE have recently attracted interest. This review summarizes the applications of MSCs derived from bone tissue marrow, adipocyte tissue, umbilical cord, synovial membrane, and gingival tissue, as well as exosomes to dealing w