biostudies-literatureSwann JWNIDDK NIH HHSNHLBI NIH HHSNCI NIH HHSWellcome Trust739-754https://www.ebi.ac.uk/biostudies/studies/S-EPMC7618457biostudies-literatureUnknown147(7)<h4>Abstract</h4>Hematopoietic stem and progenitor cells are regulated by interactions with stromal cells in the bone marrow (BM) cavity, which can be segregated into 2 spatially defined central marrow (CM) and endosteal (Endo) compartments. However, the importance of this spatial compartmentalization for BM responses to complex conditions such as inflammation remains largely unknown. Here, we extensively validate a combination of single-cell RNA sequencing profiling and matching flow cytometry isolation that reproducibly identifies 7 key CM and Endo populations and accurately surveys both niche locations. We demonstrate that inflammatory perturbations exert specific effects on different cellular compartments, with type I interferon responses causing leptin receptor-expressing mesenchymal BloodInflammation perturbs hematopoiesis by remodeling specific compartments of the bone marrow niche.PMC7618457206328R01 CA184014TL1 DK136048R35 HL135763P30 CA013696Gottgens BGuo XEZhang RDing LShyu PTHeubel BPVerovskaya EVHirakawa HPassegue ECalero-Nieto FJWang XProven MASwann JWfalseInflammation perturbs hematopoiesis by remodeling specific compartments of the bone marrow niche.<h4>Abstract</h4>Hematopoietic stem and progenitor cells are regulated by interactions with stromal cells in the bone marrow (BM) cavity, which can be segregated into 2 spatially defined central marrow (CM) and endosteal (Endo) compartments. However, the importance of this spatial compartmentalization for BM responses to complex conditions such as inflammation remains largely unknown. Here, we extensively validate a combination of single-cell RNA sequencing profiling and matching flow cytometry isolation that reproducibly identifies 7 key CM and Endo populations and accurately surveys both niche locations. We demonstrate that inflammatory perturbations exert specific effects on different cellular compartments, with type I interferon responses causing leptin receptor-expressing mesenchymal 2026-01-01T00:00:00Z2026 Feb2026-07-16T09:42:31.056Z2026-07-09T10:46:57.175ZS-EPMC76184574106033510.1182/blood.2025029513