%0 Journal Article
%A Baccin, Chiara
%A Al-Sabah, Jude
%A Velten, Lars
%A Helbling, Patrick M
%A Grünschläger, Florian
%A Hernández-Malmierca, Pablo
%A Nombela-Arrieta, César
%A Steinmetz, Lars M
%A Trumpp, Andreas
%A Haas, Simon
%T Combined single-cell and spatial transcriptomics reveal the molecular, cellular and spatial bone marrow niche organization.
%J Nature cell biology
%V 22
%N 1
%@ 1476-4679
%C New York, NY
%I Nature America
%M DKFZ-2020-00020
%P 38-48
%D 2020
%Z DKFZ-ZMBH Alliance2020 Jan;22(1):38-48#LA:A010#
%X The bone marrow constitutes the primary site for life-long blood production and skeletal regeneration. However, its cellular and spatial organization remains controversial. Here, we combine single-cell and spatially resolved transcriptomics to systematically map the molecular, cellular and spatial composition of distinct bone marrow niches. This allowed us to transcriptionally profile all major bone-marrow-resident cell types, determine their localization and clarify sources of pro-haematopoietic factors. Our data demonstrate that Cxcl12-abundant-reticular (CAR) cell subsets (Adipo-CAR and Osteo-CAR) differentially localize to sinusoidal and arteriolar surfaces, act locally as 'professional cytokine-secreting cells' and thereby establish peri-vascular micro-niches. Importantly, the three-dimensional bone-marrow organization can be accurately inferred from single-cell transcriptome data using the RNA-Magnet algorithm described here. Together, our study reveals the cellular and spatial organization of bone marrow niches and offers a systematic approach to dissect the complex organization of whole organs.
%F PUB:(DE-HGF)16
%9 Journal Article
%$ pmid:31871321
%R 10.1038/s41556-019-0439-6
%U https://inrepo02.dkfz.de/record/148828